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	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Project_Presentations&amp;diff=32810</id>
		<title>CSSS 2009 Santa Fe-Project Presentations</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Project_Presentations&amp;diff=32810"/>
		<updated>2009-07-10T19:51:40Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
===The Impact of Gender Imbalance on Marriage Markets===&lt;br /&gt;
&lt;br /&gt;
The basic concept is to try to model the effects of &amp;quot;marriage markets&amp;quot; with more men in them than women or vice-versa.  Examples of social groups which experience a gender imbalances in marriage markets include: most religious groups, college campuses, some large cities (such as New York and Washington, DC), the African-American community, and some nations (notably China).  [[Brian Hollar]]&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;Team:&#039;&#039;&#039; [[Dave Brooks]], [[Wendy Ham]], [[Nathan Hodas]], [[Brian Hollar]], [[Liliana Salvador]], and [[Guimei Zhu]]&lt;br /&gt;
&lt;br /&gt;
* [[Media:Bjh_gender_imbalance.ppt|Presentation]]&lt;br /&gt;
* NetLogo Model (Coming soon)&lt;br /&gt;
&lt;br /&gt;
===Agent-based modeling of fluidic self-assembly===&lt;br /&gt;
&lt;br /&gt;
I am building a home-made agent-based physical simulator of fluidic self-assembly for micro/nanoelectronical devices. Both 2D and 3D settings are presented. The proposed framework may constitute the first step in the introduction of this new approach to this emerging and challenging electronic manufacturing technique. - [[Massimo Mastrangeli]]&lt;br /&gt;
&lt;br /&gt;
* [[Media:ABMFluidicSA.ppt|Presentation]]&lt;br /&gt;
* NetLogo Code for 2D and 3D environment&lt;br /&gt;
&lt;br /&gt;
===The roundtable: segregation in conversation dynamics===&lt;br /&gt;
&lt;br /&gt;
The goal of this project is to build a simple (but not too simple) model of realistic social conversation dynamics. Abstracting from semantics and contents, our baseline model includes balance of protagonism vs. aggregation for each fellow, individuality, connection topology and memory effects. Ultimately we would model the dynamics of cocktail party conversations.&lt;br /&gt;
- [[Massimo Mastrangeli]], [[Martin Schmidt]], [[Lucas Lacasa]]&lt;br /&gt;
&lt;br /&gt;
* [[Media:TheRoundtable.ppt|Presentation]]&lt;br /&gt;
* NetLogo code&lt;br /&gt;
&lt;br /&gt;
===A matching model of problems and solutions===&lt;br /&gt;
&lt;br /&gt;
We are building a NetLogo model to represent the mechanisms in which problems and solutions search for and find each other. &lt;br /&gt;
[[David Brooks]], [[Wendy Ham]], [[Nathan Hodas]], [[Brian Hollar]], and [[Liliana Salvador]]&lt;br /&gt;
&lt;br /&gt;
* [[Media:Problems_solutions.ppt|Presentation]]&lt;br /&gt;
* NetLogo code&lt;br /&gt;
&lt;br /&gt;
===Determining spatial contact networks for pathogen transmission===&lt;br /&gt;
We have weekly measles outbreak reports from 60 urban cities in England and Wales dating from 1944 to 1967. It appears that several cities may act as pathogen sources from which the disease spreads to surrounding cities. We plan to reconstruct this spatial contact network for the measles data and, in doing so, introduce a method for inferring such networks for other disease outbreaks.&lt;br /&gt;
- [[Sasha Mikheyev]], [[Kate Behrman]], [[Erin Taylor]]&lt;br /&gt;
&lt;br /&gt;
* [[Media:ContactNetworkPresentation.pdf‎|Presentation]]&lt;br /&gt;
* Google motion chart of measles data (sheet &amp;quot;MeaslesOutbreaks&amp;quot;) [http://spreadsheets.google.com/pub?key=rzmvHBbtPEZ_lP_sACZmtsQ&amp;amp;single=true&amp;amp;gid=3&amp;amp;output=html]&lt;br /&gt;
&lt;br /&gt;
===Foraging on the Move===&lt;br /&gt;
&#039;&#039;&#039;Summary&#039;&#039;&#039;:In this project we develop a model for organisms that forage in groups while migrating (e.g. caribou, wildebeest), to understand how individuals should balance foraging and flocking behaviors. ([[Media:CSSS09_ForagingOnTheMove_Presentation.pdf|Final Presentation]])&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;Members&#039;&#039;&#039; ([http://www.santafe.edu/events/workshops/index.php/Foraging_on_the_move Group Page]): [[Allison Shaw]], [[Andrew Berdahl]], [[Kathrine Behrman|Kate Behrman]], [[Liliana Salvador]], [[Steven Lade]]&lt;br /&gt;
&lt;br /&gt;
===The Effect of Gossip on Social Networks===&lt;br /&gt;
&#039;&#039;&#039;Summary&#039;&#039;&#039;: In this project we look at the effects of the spread of gossip (defined as information passed between two individuals A and B about an individual C who is not present) on social network structure. ([[Media:CSSS09_EffectOfGossipOnSocialNetworks_presentation.pdf|Final Presentation]])&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;Members&#039;&#039;&#039; ([http://www.santafe.edu/events/workshops/index.php/Modeling_gossip_networks Group Page]): [[Allison Shaw]], [[Chang Yu]], [[Dave Brooks|David Brooks]], [[Milena Tsvetkova]], [[Roozbeh Daneshvar]]&lt;br /&gt;
&lt;br /&gt;
===Terrorist Networks: Radicalization Mechanisms and Spread Control===&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;Members&#039;&#039;&#039; [[Alhaji Cherif]], [[Hirotoshi Yoshioka|Hiro Yoshioka]], [[Prasanta Bose]], and [[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
[[Media:CherifetalCSSSpresentation.pdf‎|Final Presentation]]&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=File:CherifetalCSSSpresentation.pdf&amp;diff=32809</id>
		<title>File:CherifetalCSSSpresentation.pdf</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=File:CherifetalCSSSpresentation.pdf&amp;diff=32809"/>
		<updated>2009-07-10T19:45:59Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31900</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31900"/>
		<updated>2009-06-22T03:03:35Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. These projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;:&lt;br /&gt;
In this project, I examine the movement of football (aka soccer) players all over the world and see how various sociological theories can be applied to explain such movement. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s [http://www.lfp.es/ La Liga]. There are 20 teams and approximately 25 players in each team. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project. My long-term goal is to also include players from three other major European leagues (i.e. [http://www.premierleague.com/ England], [http://www.bundesliga.de/de/ Germany], and [http://www.lega-calcio.it/it.page Italy]) as well as several others (Netherlands, France, Scotland, and Portugal).&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;:&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explained solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influences the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31897</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31897"/>
		<updated>2009-06-22T03:01:39Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. These projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;:&lt;br /&gt;
In this project, I examine the movement of football (aka soccer) players all over the world and see how various sociological theories can be applied to explain such movement. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s [http://www.lfp.es/ La Liga]. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project. My long-term goal is to also include players from three other major European leagues (i.e. [http://www.premierleague.com/ England], [http://www.bundesliga.de/de/ Germany], and [http://www.lega-calcio.it/it.page Italy]) as well as several others (Netherlands, France, Scotland, and Portugal).&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;:&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explained solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influences the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31882</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31882"/>
		<updated>2009-06-21T23:55:05Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine the movement of football (aka soccer) players all over the world and see how various sociological theories can be applied to explain such movement. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explained solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31875</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31875"/>
		<updated>2009-06-21T17:00:41Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine the movement of football (aka soccer) players all over the world and see how various sociological theories can be applied to explain such movement. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31874</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31874"/>
		<updated>2009-06-21T17:00:02Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine the movement of football (aka soccer) players all over the world and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31873</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31873"/>
		<updated>2009-06-21T16:58:33Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of social contact networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31872</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31872"/>
		<updated>2009-06-21T16:49:44Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 moves. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of contagion networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31871</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31871"/>
		<updated>2009-06-21T16:49:00Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. Vertices (400+ teams worldwide) have already been geographically coded and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of contagion networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31870</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31870"/>
		<updated>2009-06-21T16:37:45Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. Vertices (400+ teams worldwide) have already been geographically codes and the analysis will be done using [http://vlado.fmf.uni-lj.si/pub/networks/pajek/ Pajek]. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (For more info, see Joan Nagel&#039;s vita for the list of her papers that can be found [http://www.sociology.ku.edu/~sociology/people/nagel/ here]). In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of contagion networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31869</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31869"/>
		<updated>2009-06-21T16:34:37Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. Vertices (400+ teams worldwide) have already been geographically codes and the analysis will be done using [[ Pajek]]More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population in the U.S. during the 1980s that cannot be explain solely by demographic factors (see Joan Nagel&#039;s vita for the list of her papers that can be found [[http://www.sociology.ku.edu/~sociology/people/nagel/ here]]. In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of contagion networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31868</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31868"/>
		<updated>2009-06-21T16:31:37Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;br /&gt;
&lt;br /&gt;
2. &#039;&#039;&#039;Ethnicity as Complex Adaptive Systems&#039;&#039;&#039;&lt;br /&gt;
In the social sciences, it is widely agreed that concepts such as race and ethnicity are socially constructed. One landmark example include the increase in the number of the native American population &lt;br /&gt;
in the U.S. during the 1980s that cannot be explain solely by demographic factors. In my project, based on demographic census and nationally representative census data and my observation from the field, I aim to predict how people who claim their indigenous identities will change under today&#039;s rapidly changing societies in Guatemala and Nicaragua, mainly because of two major factors: neoliberal multiculturalism and international migration. The project will be divided into three parts: In the first part, applying balance theory and the concept of biased networks, I examine the mechanisms through which people give up or re-confirm their indigenous identities and how today&#039;s circumstances affect such identities. In the second part, using the framework of contagion networks (SEIR), I examine how changes in societies may affect the proportion of indigenous groups in the two countries and what can explain the difference in the maintenance of indigenous cultures in the two countries. Finally, extending the Fararo-Kosaka model of the image of social stratification, I will analyze and predict general images of ethnic minorities that the majority of people would hold and what influence the stabilization of these images.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31867</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31867"/>
		<updated>2009-06-21T16:19:41Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. More background information can be found at [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31866</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31866"/>
		<updated>2009-06-21T16:19:21Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;br /&gt;
In this project, I examine movements of players from one team to another and see how various sociological theories can be applied to explain these movements. Currently, I have a data set of movements among those currently playing in the first division of Spain&#039;s la Liga. There are 20 teams and approximately 25 players in each teams. And in their senior careers, they have made more than 1,600 movements. More background information can be found [http://www.patrickdoreian.com Patrick Doreian&#039;s website] who started the project.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31864</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31864"/>
		<updated>2009-06-21T16:12:37Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
1. &#039;&#039;&#039;The World System of Football&#039;&#039;&#039;&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31863</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31863"/>
		<updated>2009-06-21T16:10:40Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods: [[Hirotoshi Yoshioka]]&lt;br /&gt;
&lt;br /&gt;
[1]&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31862</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31862"/>
		<updated>2009-06-21T16:10:17Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Two Loosely Related Projects */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;br /&gt;
The below projects are individual projects that I am working on. The themes of the projects have nothing to do with terrorist networks, but these projects use similar methods. [[Hirotoshi Yoshioka]]&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31861</id>
		<title>Radicalization</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Radicalization&amp;diff=31861"/>
		<updated>2009-06-21T16:07:03Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;==Members==&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka ]]&lt;br /&gt;
&lt;br /&gt;
[[Prasanta Bose]]&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&lt;br /&gt;
&lt;br /&gt;
This wiki only has the summary of our intention, interested individual should talk to any of the group members&lt;br /&gt;
&lt;br /&gt;
==Background==&lt;br /&gt;
Current US counter-terrorism efforts have either scattered, killed or captured Al-Qaeda&#039;s core leadership, reducing the threat from its central core operatives, foot-soldiers and leaders. However, the Jihad-Salafism continues to spread at an exponential rate across various locales, as a result creating subcultures within vulnerable Islamic Diaspora communities. The threat from radicalized Salafist-Jihadists has evolved and has become diasporic (e.g.: Madrid 2004, Amsterdam Hofstad group, London 2005, Toronto 18 Case and Australia&#039;s Operation Pendennis) in nature.&lt;br /&gt;
&lt;br /&gt;
The aim of this project is two-fold:&lt;br /&gt;
&lt;br /&gt;
[1] Radicalization process: Recent modeling efforts have focus on strategic measures of controlling terrorism, few have focus primarily on the horizontal process of fanaticism. However, these models fail to incorporate various dynamics (oblique and vertical process of fanaticism).  In our project, we model the process of radicalization that includes ideological transmission with differential recruitments.&lt;br /&gt;
&lt;br /&gt;
[2] Control Mechanism:  In this project, we hope to develop new kind of control mechanism we have called reactive control.  Usually, application of control theory requires one to know the equations representing the system of interest.  However, most real world problems, at least the interesting one, do not have any concrete equations.  In order to circumvent this problem, we hope to develop a coarse-grained control theory that adaptively adjusts to the mechanism of interests.&lt;br /&gt;
&lt;br /&gt;
The methods we hope to develop and apply are general and can be applied to various disciplines and applications (fads, contagion, control of disease, implementation of robust policy, etc....)&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
==Two Loosely Related Projects==&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Projects_%26_Working_Groups&amp;diff=31859</id>
		<title>CSSS 2009 Santa Fe-Projects &amp; Working Groups</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Projects_%26_Working_Groups&amp;diff=31859"/>
		<updated>2009-06-21T12:32:39Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
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&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
==Project Groups==&lt;br /&gt;
===Foraging on the move=== &lt;br /&gt;
[[Allison Shaw]]: I&#039;ve moved the discussion of this idea to a separate project page -- see ([[Foraging on the move]]) for more detail and feel free to join in!&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
===Problem solving and mating - are they similar?=== &lt;br /&gt;
&lt;br /&gt;
The discussions on this project have been moved to a separate page: [[Problem solving]]&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
=== Interacting distribution networks ===&lt;br /&gt;
Moved to its own page: [[Interacting distribution networks]]&lt;br /&gt;
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&lt;br /&gt;
===Modeling Gossip Networks=== &lt;br /&gt;
Moved to a separate page: [[Modeling gossip networks]]&lt;br /&gt;
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===Radicalization of Islamic Diasporas and Reactive Control Theoretical Approach===&lt;br /&gt;
See [[Radicalization]]&lt;br /&gt;
&lt;br /&gt;
==Brainstorming==&lt;br /&gt;
===Disease ecology of media hype=== &lt;br /&gt;
How much and event gets covered in the news often appears to depends on how much it is already covered in the news. Often this distorts reality. For example, the number of searches for &amp;quot;swine flu&amp;quot; (a proxy for media hype), do not reflect  the patterns of disease spread over the same period. &lt;br /&gt;
[[Image:Flu_trends.png|thumb|Google searches for &amp;quot;swine flu&amp;quot;|left]] &lt;br /&gt;
[[Image:Flu_cases.png |thumb|Actual number of swine flu cases over the same period|left]]&lt;br /&gt;
While the number of flu cases increased, the searches died off, as interest in the topic waned. It would be interesting to follow the origin, spread and extinction of media hype, maybe applying models commonly used to study the spread of disease. [[Alexander Mikheyev]]&amp;lt;br style=&amp;quot;clear:both&amp;quot; /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
You could look at the dynamics from agent-based (ABM) perspective. There is a recent paper by Epstein and colleague that focuses on the impact of fear on disease from agent-based perspective, but does not capture this dynamics.  However, my collaborator and I are currently writing a paper on the same problem you just outline from mathematical epidemiological perspective. Our results show some interesting dynamics.  I think its extension in ABM might provide richer dynamics.&lt;br /&gt;
Another relevant paper: S. Funk, E. Gilad, C. Watkins and V.A.A Jansen (2009) the spread of awareness and its impact on epidemic outbreaks. PNAS early edition&lt;br /&gt;
[[Alhaji Cherif]]&lt;br /&gt;
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===Complex networks of acupuncture points around the body=== &lt;br /&gt;
&lt;br /&gt;
what this project supposed to do is to set up the correlations of 720 acupuncture points complex network to do some interesting research on it. And what is important is such kind of work hasn&#039;t been done as i know. Feel free to have some discusstions on it to excite some good ideas. You could search &amp;quot;acupuncture&amp;quot; on wiki to get some general knowledge, Part of them are as belows.&lt;br /&gt;
&lt;br /&gt;
Acupuncture is a technique of inserting and manipulating fine filiform needles into specific points on the body to relieve pain or for therapeutic purposes. The word acupuncture comes from the Latin acus, &amp;quot;needle&amp;quot;, and pungere, &amp;quot;to prick&amp;quot;. In Standard Mandarin, 針砭 (zhēn biān) (a related word, 針灸 (zhēn jiǔ), refers to acupuncture together with moxibustion).&lt;br /&gt;
&lt;br /&gt;
According to traditional Chinese medical theory, acupuncture points are situated on meridians along which qi, the vital energy, flows. There is no known anatomical or histological basis for the existence of acupuncture points or meridians. Modern acupuncture texts present them as ideas that are useful in clinical practice. According to the NIH consensus statement on acupuncture, these traditional Chinese medical concepts &amp;quot;are difficult to reconcile with contemporary biomedical information but continue to play an important role in the evaluation of patients and the formulation of treatment in acupuncture.&amp;quot;&lt;br /&gt;
&lt;br /&gt;
The earliest written record that is available about acupuncture is Huangdi Neijing (黄帝内经 or Yellow Emperor&#039;s Inner Canon), which suggests acupuncture originated in China and would explain why it is most commonly associated with traditional Chinese medicine (TCM). Different types of acupuncture (Classical Chinese, Japanese, Tibetan, Vietnamese and Korean acupuncture) are practiced and taught throughout the world. [[Guimei Zhu]]&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
====Acupuncture/Chinese Alternative Medicine====&lt;br /&gt;
&lt;br /&gt;
Here are some more papers regarding research that has been done on acupuncture.  Some network analysis has been done. Very interesting stuff!&lt;br /&gt;
&lt;br /&gt;
[[Media: AcupunctureOverview.pdf|Acupuncture Overview]]: Here is an overview of acupuncture from a journal entitled &amp;quot;Alternative Therapies&amp;quot; in 1998.&lt;br /&gt;
&lt;br /&gt;
[[Media: AcupunctureGraphTheory.pdf| Acupuncture and Graph Theory]]: This paper was written in &amp;quot;Progress in Natural Science&amp;quot; in 2009 which implements the use of graph theory to make a model to understand the effects of acupunture on brain function.&lt;br /&gt;
&lt;br /&gt;
[[Media: AcupunctureFibroblasts.pdf|Body-Wide Cellular Network of Fibroblast Cells]]: A paper relating the study of a body-wide network of fibroblasts to acupuncture.  Written in &amp;quot;Histochemistry and Cell Biology&amp;quot; in 2004.&lt;br /&gt;
&lt;br /&gt;
[[Media: AcupunctureNeedleAdmin.pdf|Acupuncture-Psychosocial Context]] And another which studies the effects of the procedure.  Written in &amp;quot;Advanced Access Publication&amp;quot; in 2008.&lt;br /&gt;
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Enjoy!  [[Karen Simpson]]&lt;br /&gt;
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===Housing prices.=== &lt;br /&gt;
[[Image:Phoenix.jpg|thumb|Change in Phoenix home prices. Source: NYT|left]]&lt;br /&gt;
The New York Times has a set of [http://www.nytimes.com/interactive/2007/08/25/business/20070826_HOUSING_GRAPHIC.html?scp=3&amp;amp;sq=home%20prices%20graphic&amp;amp;st=cse dramatic graphs] showing the rise and fall of home prices in select cities. Again these graphs reminded me a bit of those produced by [http://www.math.duke.edu/education/ccp/materials/postcalc/sir/sir2.html susceptible-infected-recovered] models of disease spread. Maybe there is something to it? Or maybe this phenomenon is already well understood by economists? [[Alexander Mikheyev]]&amp;lt;br style=&amp;quot;clear:both&amp;quot; /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
===Movie Turnouts=== &lt;br /&gt;
Which would be the more popular movie -- a combination of Steven Spielberg, Eddie Murphy and Gwyneth Paltrow, or Woody Allen, Dwayne &#039;the rock&#039; Johnson, and Tom Cruise?  Using the adaptation and turnout models presented by Nathan Collins, could we construct a prediction for gross movie receipts or even movie ratings?   [[Nathan Hodas]]&lt;br /&gt;
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===Climate network model.=== &lt;br /&gt;
&#039;&#039;Requires someone with climatology knowledge.&#039;&#039; Lenton et al. recently published a [http://www.pnas.org/content/105/6/1786 paper] listing &#039;policy-relevant&#039; &#039;tipping elements&#039; in the Earth&#039;s climate system and the temperature tipping points required to initiate them. (Basically, the tipping elements are components of the climate system where a bifurcation leading to a different stable state can be induced. The tipping point is the temperature at the bifurcation.) Surely, many of these tipping elements would have feedback effects on other tipping elements or the climate system as a whole. I would like to make a network model of these tipping elements and look at the tipping (or other) dynamics of the whole system. But Lenton et al. don&#039;t discuss these feedbacks much in their model, so we need some expert knowledge. [[Steven Lade]]&lt;br /&gt;
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[[Almut Brunner]] Sounds like a very challenging project. As climate modelling is a very broad issue in itself, I would suggest to look at a specific example of threshold values in climate models, e.g. changes in rainfall patterns in Saharan environment and its impact on vegetation cover and finally desertification. It is known, for example, that if the rainfall amount in the Sahara drops below a critical value of 100mm/yr, the vegetation cover will change extremely due to reduced water availability and hence cause irreversible environmental changes. But I am not sure, if we could model that due to complicated/complex feedback mechanism and limited access to data. Another idea could be to simulate the other extreme - increased rainfalls. Is there a critical threshold value/tipping point causing extreme floods and environmental hazards in exposed, vulnerable landscapes (e.g. lowlands, coastal regions or even around here in the Grand Canyon region for which we can certainly get some nice data?). &lt;br /&gt;
Looking forward to discuss these issues a bit more with you.&lt;br /&gt;
What kind of model did you have in mind for simulating tipping point and feedback mechanism?&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]] I wasn&#039;t thinking of modelling any of the physics or ecology directly, but at a coarse level with something like&lt;br /&gt;
&amp;lt;pre&amp;gt;node_i (time) = f_i[global temperature(time - delay_i), outputs of other nodes(time - delay_i)]&lt;br /&gt;
global temperature(time) = IPCC[time] + g[outputs of nodes(time)]&amp;lt;/pre&amp;gt; &lt;br /&gt;
Each of the nodes would be a local tipping element. Lenton et al. already provide the global average temperature thresholds for the tipping elements and the time delay for the element to actually tip. We can then specify the part of the function &amp;lt;code&amp;gt; f_i[global temperature] &amp;lt;/code&amp;gt; with something like a sigmoidal function. For the base time course of global temperature we could use IPCC projections or hold it fixed and just see what the feedbacks do to it. What Lenton et al. doesn&#039;t specify in detail is these feedbacks -- i.e. the dependence of nodes and the global temperature on the other nodes. Someone suggested to me that for a more abstract study we could look at the behaviour of the system over a range of possible feedbacks.&lt;br /&gt;
&lt;br /&gt;
===Synchronised magma oscillations=== &lt;br /&gt;
&#039;&#039;Requires someone with geological knowledge&#039;&#039; In a recent [http://www.springerlink.com/content/n76781712g2q3578/?p=ec0c1ffe588f473a8dbe9637a3822ebf&amp;amp;pi=2 paper], which was also [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;amp;_udi=B83WY-4WBRC9H-G&amp;amp;_user=554534&amp;amp;_coverDate=05%2F20%2F2009&amp;amp;_alid=931681330&amp;amp;_rdoc=1&amp;amp;_fmt=high&amp;amp;_orig=search&amp;amp;_cdi=33799&amp;amp;_sort=d&amp;amp;_docanchor=&amp;amp;view=c&amp;amp;_ct=1&amp;amp;_acct=C000028338&amp;amp;_version=1&amp;amp;_urlVersion=0&amp;amp;_userid=554534&amp;amp;md5=5dc46c822607723e06f9b72fb16d1463 reported] by New Scientist, Mjelde and Faleide report on seismological measurements that allowed them to infer past rates of magma flow in the plume generally though to rise beneath Iceland. When the plume is strong it thickens the Earth&#039;s crust at this point. They found the crust thickened approximately every 15 million years, and inferred that the magma plume must also have pulsed with this period. These pulsations have also been observed in the crust under Hawaii, with almost exactly the same period! Mjelde and Faleide hypothesise that there must be some giant heating oscillation in the Earth&#039;s core which drives these two oscillations at very different parts of the Earth. But other geologists are skeptical because of the huge energy required and lack of other evidence of such oscillations. But all this reminds me of the synchronisation phenomenon, where coupled oscillators, even if only weakly coupled, tend to synchronise. So the oscillations under Hawaii and Iceland may be generated independently, but have some weak coupling that has led them to synchronise. We can make coupled oscillator models, that&#039;s easy, but someone to provide more context on possible forms of coupling and their parameterisation is more what we need. They only observe about three periods of this oscillation and the data is quite imprecise so we can&#039;t do much direct data analysis, unfortunately. [[Steven Lade]]&lt;br /&gt;
&lt;br /&gt;
===Implementing Synchronization using NetLogo===&lt;br /&gt;
Since I just learned about NetLogo, I look forward to the tutorial sessions and would like to implement a synchronization scheme of a group of entities.  If I find out how the fireflies synchronize themselves, then that would be an option.  Of course, I&#039;ll be surprised if this has not been done before in NetLogo.  I&#039;ll welcome any help and suggestions.[[Mahyar Malekpour]]&lt;br /&gt;
&lt;br /&gt;
[[Mahyar Malekpour]]: Update June 16, 2009 -  Someone asked if there is an application for this.  The answer is yes, categorically, any self-organizing system needs synchronization.  However, my interest here are visualization and exploration using agent-based tools.  I don not intend to develop a solution to this problem, rather build on an existing agent-based model (if there is any) and enhance its capabilities.&lt;br /&gt;
&lt;br /&gt;
[[Massimo Mastrangeli]]: as someone said, there is vast literature on synchronization available; you can for example get a taste in [http://www.amazon.com/SYNC-Emerging-Science-Spontaneous-Order/dp/0786868449 Sync] by Steven Strogatz (also, check out his talk [http://www.ted.com/talks/steven_strogatz_on_sync.html at TED]). I am quite interested in the idea.&lt;br /&gt;
&lt;br /&gt;
===Contagion in Networks===&lt;br /&gt;
[[Peter Dodds]] discussed contagion in a simplified network in which all the nodes have certain amount of threshold for changing. I thought that if the thresholds are various, that can lead to new behaviors in group level. For instance, people in different cities might have different resistances against inputs. Hence, we might see that an epidemic issue spreads in one city but not in the other. Consider the cities as nodes in a higher level network. This means that we might see the same patterns in this higher level. Different nodes (cities) react differently to external inputs. This also seems to be a more realistic model of the real world. Any comments, suggestions or discussions, even in the order of minutes are appreciated!&lt;br /&gt;
[[Roozbeh Daneshvar]]&lt;br /&gt;
&lt;br /&gt;
* Perhaps this concept could be related to ecological food webs and the success of invasive species.  The &amp;quot;epidemic&amp;quot; would be an introduced species, and the &amp;quot;spreading of the disease&amp;quot; would be how successful the alien species is within that food web.  There are plenty of journal articles attempting to study the success of biological invasion, and I think in addition to looking at the food web networks, generating an agent based model would be ideal!  It could be related to your idea, Roozbeh, in that the cities represent &amp;quot;habitats&amp;quot;, and the &amp;quot;epidemics&amp;quot; represent the introduction of an alien species.  &lt;br /&gt;
&lt;br /&gt;
* [[Karen Simpson]]: Introducing Agent-Based Modeling: Several concepts (external and internal inputs) have been discussed that are said to contribute to whether or not a species succeeds in it&#039;s novel environment.   These include: how many individuals are in the founding population, the &amp;quot;strength&amp;quot; of any competing organisms (this would be 0 is there are no competitors), the amount resources available, the ability of organism to adapt to the new environment, physiological advantages of new species over native species (i.e. defense mechanisms), and many more.  I think we could find properties of ecological foodwebs, and then introduce a species (or epidemic) into the network and see what happens based on these inputs. Let me know your thoughts.&lt;br /&gt;
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* [[Roozbeh Daneshvar]]: Karen, this sounds interesting to me and I&#039;d like to know more. Shall we have more discussion over it on Tuesday?&lt;br /&gt;
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===Linking topology to dynamic response in small networks=== &lt;br /&gt;
Imagine a small (3-7 nodes) network where every node represents a protein species, and every (directed) edge the activation relation between the proteins (i.e. A ---&amp;gt; B means that the protein A can react with B and activate it). Furthermore,&lt;br /&gt;
assume that there are two numbers associated with every node: the total number of protein molecules of the given type and the fraction of the active forms. Finally, let two nodes, R and E, be special and call them the Receptor and the Effector. What you have is a crude model of intracellular signalling.&lt;br /&gt;
&lt;br /&gt;
This [http://www.cosbi.eu/templates/cosbi/php/get_paper.php?id=147 paper] considers such models and exhaustively classifies all the possible topologies (i.e. wirings) with respect to the activation pattern of the Effector in response to a standardized signal sent by the Receptor. The goal of our project would be to do the same experiment using different tools, and potentially obtain different results. The main difference would be to use stochastic (rather than deterministic) dynamics to determine the response. As the signalling systems operate with relatively low numbers of molecules, stochastic effects may be important. If we do this and have time left, we can try pushing it further and consider the issues of robustness and evolvability of these networks.&lt;br /&gt;
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To put a nasty spin on the project, I propose that we use an obscure computational technique called [http://en.wikipedia.org/wiki/Model_checking model checking] to get the response profile of a network; partly just because we can, but partly also because it nicely deals away with the need of explicitely simulating and averaging of stochastic models.&lt;br /&gt;
&lt;br /&gt;
Now, a couple of final remarks:&lt;br /&gt;
* Don&#039;t think of it as a network project. All networks involved will be rather trivial.&lt;br /&gt;
* The project group should include a biologist (to do sanity checks) and somebody familiar with parallel computing. &lt;br /&gt;
* Model checking is (very) expensive computationally, we will probably need a cluster.&lt;br /&gt;
* I have all the original results from the paper mentioned.&lt;br /&gt;
* The tool to use would probably be [http://www.prismmodelchecker.org/ PRISM].&lt;br /&gt;
[[Marek Kwiatkowski]]&lt;br /&gt;
&lt;br /&gt;
: Marek, this dovetails nicely with my interests &amp;amp; I&#039;d like to talk more about it with you.  I have experience with -- and access to! -- a parallel cluster.  No experience with prism, however.  [[Rosemary Braun]]&lt;br /&gt;
: OK then, I am going to start a [[From Topology to Response]] project page. &#039;&#039;&#039;We still need a biologist.&#039;&#039;&#039; [[Marek Kwiatkowski]]&lt;br /&gt;
If you did not do this yet, I suggest you to have a look at &amp;quot;Small Worlds&amp;quot; by Duncan Watts. It containts useful information, models and mathematics on the topic. -[[Massimo Mastrangeli]]&lt;br /&gt;
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===Pattern Generation in Dynamic Networks: Elucidating Structure-to-Behavior Relationships=== &lt;br /&gt;
Many sorts of networks produce patterns when dynamics are active on them. The brain is a great example. In fact, the patterns generated in your head are not only interesting and perhaps beautiful, but crucial to your success in surviving and thriving in the world. Gene or protein networks are another example. Change a few genes around and suddenly your stuck with a nasty disease.&lt;br /&gt;
&lt;br /&gt;
One question we can ask is: how do the patterns of behavior (or &amp;quot;function&amp;quot; if you want to presume as much) change when we change the structural connections in the dynamic network from which they emerge? Alternatively, for a given type of behavior (set of similar patterns), is there a class of networks which all exhibit this behavior? What is common between all of those networks? What is the underlying mechanistic explanation for how they all behave this way?&lt;br /&gt;
&lt;br /&gt;
Some potential topics:&lt;br /&gt;
* Genetics - what patterns of proteins emerge depending on what genes are where on a genome? (maybe other questions ... I&#039;m not a geneticist!)&lt;br /&gt;
* Spiking neural networks - I have a lot of experience with this.&lt;br /&gt;
* Kauffman-like Boolean networks&lt;br /&gt;
* Population biology / food webs?&lt;br /&gt;
* Economics?&lt;br /&gt;
&lt;br /&gt;
We might even think of embedding this in some physical space. Perhaps neural nets drive the &#039;muscle&#039; movements of creatures (a la the [http://www.karlsims.com/evolved-virtual-creatures.html Karl Sims &#039;Creatures&#039;] video we saw in Olaf Sporn&#039;s lecture) or the motors of [http://people.cs.uchicago.edu/~wiseman/vehicles/test-run.html vehicles].&lt;br /&gt;
&lt;br /&gt;
I have experience in Python, Java, Matlab and a few other languages and am open to working with whatever (NetLogo?). I also have experience with Information Theory, which could come in handy in digesting and analyzing the patterns.&lt;br /&gt;
&lt;br /&gt;
Clearly this project could go multiple directions. Feel free to add ideas/comments here...&lt;br /&gt;
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[[watson]]&lt;br /&gt;
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* [[Jacopo Tagliabue]]: Premise: I don&#039;t know if it makes sense at all, and even if it fits the project. I was thinking that just not the fact that some areas are connected makes a difference, but also the way they are connected. For example, the synchronization of neurons plays a pivotal role in the proper behaviour of the brain: when some disease (such as  [http://en.wikipedia.org/wiki/Multiple_sclerosis multiple sclerosis]) leads to [http://en.wikipedia.org/wiki/Demyelinating_disease demyelination], the signals in the axioms can no more be processed at the right speed. The upshot is progressive cognitive and physical disability. Can we use agend-base models and/or network analysis to better understand what happens (and why, for example, multiple sclerosis may evolve in four different ways)? If someone with some neuroscience background would like to talk about this (or just explain why this doesn&#039;t make sense at all),I&#039;d be glad to learn!&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]]: This is interesting to me, especially in the case of food webs merely because that is what I am most familiar with.  Within an ecological community, there are certain links that depict the dynamics within that community.  If we remove a link (or change it somehow, maybe by redirecting it through another organism), the community is stressed.  The community may be resilient and the underlying dynamics may shift back to equilibrium. On the other hand, it may lead to the extinction of certain organisms.  &lt;br /&gt;
One way that these links are changed is by introducing another node into the system, this node representing an introduced species.  The success of this species depends largely on its position in the food web and its connecting links.  My question (from an ecological perspective) is: Does introducing a non-native species result in different underlying dynamics and patterns?  My intuition says yes, but it largely depends on the ability of the non-native organism to succeed in it&#039;s new environment.  (See my thoughts under &amp;quot;Contagion in Networks&amp;quot; for more on this topic)&lt;br /&gt;
&lt;br /&gt;
* [[Massimo Mastrangeli]]: The topic looks very interesting. I read a lot on Kauffmans&#039; approach and I would probably like to get dirty hands on it. The idea in my opinion is to create a network with a plausibly vast and interesting state space, and explore it using some tools. Analysis of the dynamics of the transitions from one steady state to another might be interesting.&lt;br /&gt;
&lt;br /&gt;
=== All sorts of (mostly US-centric) data===&lt;br /&gt;
For fun, brainstorming, and sanity-checking:&lt;br /&gt;
[http://www.data.gov/ data.gov] has tons of data  collected by the US Gov&#039;t.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
===Modularity in complex systems - why is it there and what does it do?===&lt;br /&gt;
Evolving systems often switch from being highly modular to highly integrated, and vice versa. Why is this so and how does it happen? [[Wendy Ham]] and [[Roozbeh Daneshvar]].&lt;br /&gt;
&lt;br /&gt;
* [[Roozbeh Daneshvar]]: Today in a slide of [[Olaf Sporns]] presentation, I noticed a graph showing the relation between order/disorder and complexity. When the system becomes too much ordered or too much disordered, in both cases complexity reduces. There is somewhere in between that we have the most amount of complexity. I was thinking that the emergence of modules are also a movement towards orderliness. But, complex systems do not go beyond a limit and still keep some non-modularity. So, Wendy, we have contrasting views on modularity. But maybe we will meet somewhere in between, where we have the most amount of complexity!&lt;br /&gt;
** &#039;&#039;&#039;Question&#039;&#039;&#039;: Why modularity changed in human societies? Did the behavior of complexity change?&lt;br /&gt;
* [[Steven Lade]] Wendy, can you give some examples for evolving systems moving from &amp;quot;highly modular to highly integrated&amp;quot;? Also Roozbeh I don&#039;t understand what you mean by &amp;quot;behavior of complexity&amp;quot;. Maybe we should talk.&lt;br /&gt;
&lt;br /&gt;
* I like this idea. Clearly it needs some more fleshing out, but its a good direction. One thing to think about when you see modularity biologically is whether certain &#039;modules&#039; can be reused multiple places. Komolgorov complexity is something that you might look at... [[watson]]&lt;br /&gt;
&lt;br /&gt;
* [[Wendy Ham]] Thanks Watson, I will check out the Komolgorov reference. To Steve: Roozbeh and I started thinking about this when we discussed how some societies have evolved from having a clear demarcation between the gender roles (e.g., men work and make money, women stay home and take care of kids) to not having this demarcation anymore (i.e., gender equality, etc). So at least with regards to gender roles, these societies have evolved from being modular to being integrated. As a general rule, I tend to believe that modularity is important for allowing innovation and adaptation, which are important in a changing environment, whereas integration is good for efficiency. So, the question here, for example, is whether these societies have reached a certain level of &amp;quot;stability&amp;quot; such that modularity is no longer important. Aside from this example, people have shown that bacteria that live in changing environments tend to be modular, whereas those that live in a stable environment tend to be more integrated. Furthermore, organizations (e.g., business firms) also tend to become more integrated/tightly coupled as they mature.&lt;br /&gt;
&lt;br /&gt;
* [[Roozbeh Daneshvar]]: Steven, we have a complexity landscape here that imposes where the system should stay. That is normally somewhere between order and disorder that gives the system the highest capabilities. I also associated order with modularity and disorder with dis-modularity ([[Wendy Ham]] seemed to agree with this!). Now the amount (and perhaps form) of modularity has changed. So, my intuition is that the complexity landscape (which determines the future behaviors of the system) is changed. This is what I meant by change in &amp;quot;behavior of complexity&amp;quot;. I meant that the dynamics of that complex system is changed and hence, the equilibrium is somewhere that did not use to be equilibrium before this (there were some topics related to this area on Monday June 15 lectures).&lt;br /&gt;
&lt;br /&gt;
* [[Gustavo Lacerda]]: Watson, Kolmogorov Complexity is a very general concept. Do you mean &amp;quot;motif discovery&amp;quot;?&lt;br /&gt;
&lt;br /&gt;
* [[Mauricio Gonzalez-Forero]]: I would like to hear more about this project. Can we meet sometime?&lt;br /&gt;
&lt;br /&gt;
===Evolving nanomachines===&lt;br /&gt;
&lt;br /&gt;
Take the evolving motors animation we saw at the end of Olaf Sporn&#039;s talk, but instead put nanoscale physics, i.e. overdamped motion with Brownian noise, into the simulation. Perhaps put some basic chemistry in too. Evolve possible designs for nanomotors! What we get may include existing biological molecular motors. Or even more crazy idea: put in the physics of quantum mechanics. [[Steven Lade]] but with credits to Lilliana!&lt;br /&gt;
&lt;br /&gt;
* [[Roozbeh Daneshvar]]: I am interested in this. Although I am curious to know what methods do you want to pursue for this matter? ABM? By the way, I deeply believe that this is the kind of research which determines the future of robotics!&lt;br /&gt;
&lt;br /&gt;
===Credit Market Simulation===&lt;br /&gt;
Money is loaned every day on the bond and money markets between banks, corporations, and individuals.  It usually works very efficiently, but, ultimately, it is driven by humans.  An agent simulation could provide us with insight into what behavior patterns give rise to the booms and busts that we have been experiencing.  My guess is that it boils down to how individuals estimate risk and future reward.  Nathan Collins suggested a learning model for how people get habituated to reward, expecting more and more for satisfaction.  However, what happens to our estimates of risk in the face of increasing rewards?  When the two are out of sync, we would likely see interesting dynamics.  We&#039;ve come up with a few ideas for how to implement this.  [[Nathan Hodas]]&lt;br /&gt;
* [[Jacopo Tagliabue]]: It could be interesting to embed insights on risk-seeking and risk-averse behaviour from prospect theory and behavioural economics. I am also interested in agent-based simulations of a simple economy, where agents may use different heuristics (rational decision theory, Simon&#039;s model, Kahneman and Tversky theory, etc) to decide what to do.  It is often said that in the market &amp;quot;errors cancel each other out&amp;quot;, leaving a optimal or quasi-optimal global outcome: but is it true? And what&#039;s the relationship between individual strategies and this dynamics?&lt;br /&gt;
&lt;br /&gt;
*[[john paul]]: I&#039;d like to throw my weight in with this one to see how this is addressed. Mr. Hodas and I have been talking about real-world risk associated with credit and defaults as noise in a system, and directed flows of current cash, credit and derivatives as three possible visualizations. Ideally we can pull out some real-world credit data and begin to construct a scale market of one economy (or sector of an economy, like government spending) and then hopefully either scale that up or adjust as needed to other data.&lt;br /&gt;
&lt;br /&gt;
* [[Wendy Ham]] Do you guys consider credit default swaps (CDS) as a special kind of financial instrument - one that almost completely lacks inhibitory mechanisms and thus is able to grow indefinitely? (Analogy to cancer cells?)&lt;br /&gt;
&lt;br /&gt;
===Creative Process=== &lt;br /&gt;
This is a very preliminary attempt to analyze the creative process in order to identify how we come up with ideas.  &lt;br /&gt;
&lt;br /&gt;
Creation of ideas as a process of random combination of concepts and connections taking place in the subconscious.  Most of these ideas are filtered before reaching the conscious.  Those ideas that rise above the conscious are new to the individual, some of which may also be new to the world.  We generally classify the latter ideas as creative.  Furthermore, the creativity literature refers to ideas as creative only when they are immediately useful in solving some problem or condition.&lt;br /&gt;
&lt;br /&gt;
The existing concepts and connections can be considered as nodes or agents.  A new idea can be a combination of at least 2 concepts + a connection or two connections, or some superposition of them.  The following rules obey at the subconscious level:&lt;br /&gt;
&lt;br /&gt;
1. The random process is taking place all the time with a single combination at one time&lt;br /&gt;
&lt;br /&gt;
2. Each idea (which is a newly created concept or connection) attempts to pass through a filter.  It either passes through or it doesn’t.  If it does pass through, the idea is recognized and the coupling between the concepts/connections is raised.  Each increase is by a factor of 0.1 (starting from 0) of the existing coupling until it reaches a maximum of 1.  If it doesn&#039;t pass through, it ceases to exist (however, it may reappear later and given a change in the characteristics of the filter, they may be allowed to pass through).&lt;br /&gt;
&lt;br /&gt;
The rules that define the ideas that pass through are:&lt;br /&gt;
&lt;br /&gt;
1. The database of filters (individual’s understanding of the external environment, self control, etc.) defined in terms of what concept and connection associations are allowed to pass through as well as 20% deviation in them.  [Ques: How can the deviation of a concept be evaluated numerically?] &lt;br /&gt;
&lt;br /&gt;
Using complexity theory:&lt;br /&gt;
&lt;br /&gt;
1. Agent based modeling can be used to identify how newer ideas rise to the level of consciousness, how the filters affect them&lt;br /&gt;
&lt;br /&gt;
2. The network analysis can be used to understand how the coupling affects the creation of new ideas (concepts/connections)&lt;br /&gt;
&lt;br /&gt;
[[Murad Mithani]]&lt;br /&gt;
&lt;br /&gt;
[[Wendy Ham]]: Hi Murad, there are definitely some overlaps in our interests.&lt;br /&gt;
&lt;br /&gt;
===The Biological Evolution and Social Learning of Cooperation=== &lt;br /&gt;
Both evolutionary biologists and social scientists have convincingly shown that cooperation can emerge and persist in human society. Although the two have employed the same methods (game theory and agent-based modeling), they have proposed different mechanisms: on the one hand, biological evolution based on kin selection, group selection, the “green-beard” effect or reciprocity and on the other, socio-cultural adaptation due to social learning. The two mechanisms act on different time scales and make different assumptions on the agents’ behavior (fixed vs adaptive) and the underlying dynamics (reproduction vs imitation). I think it will be interesting to combine the two mechanisms in a single agent-based model and to explore how they relate to each other. Following standard practice, the model will consist of agents on a spatial grid or a(n evolving) network who play a game such as the Prisoner’s Dilemma or Hawk-Dove. [[Milena Tsvetkova]]&lt;br /&gt;
&lt;br /&gt;
Nice. Indeed, one can reinterpret things to some extent and understand cultural and biological evolution in similar veins. In both sorts of evolutionary processes, individuals can be assigned fitness. In the biological case fitness refers to ability to leave offspring, while in the cultural case fitness might refer to ability to be imitated by others. So, reproduction can be understood as genetic or cultural. Mainstream evolutionary biologists use these interpretations, but I wonder if they break in some cases. [[Mauricio Gonzalez-Forero]]&lt;br /&gt;
&lt;br /&gt;
[[Mauricio Gonzalez-Forero]]: Mareen, Varsha and I have sketched a potential agent-based model for the evolution of division of labor. It needs more thought, and the input from social sciences people would be very valuable. The model considers two labors performed by agents and a cooperative trait. Given spatial structure and dispersal restriction, we expect the cooperative trait to allow for the division in labor to evolve. It should be straightforward to implement in NetLogo. After an analysis of the simulations, it would be neat to synthesize the model analytically. Interested people are certainly welcome to help!&lt;br /&gt;
&lt;br /&gt;
[[Gustavo Lacerda]]: Mauricio, this sounds interesting.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
===The Emergence of Meaning and the Evolution of Language=== &lt;br /&gt;
&lt;br /&gt;
There are several attempts in the philosophical and psychological literature (see [http://en.wikipedia.org/wiki/David_Lewis_(philosopher) Lewis’ work] on convention and [http://en.wikipedia.org/wiki/Paul_Grice Grice’s] analysis of meaning) to analyze the emergence of meaning. Most accounts (it not all) make extensive use of meta-representations, that is, the ability we have to understand other people intentions and “read” the content of their mental states. There are two problems with these theories: first, they are developed in a static fashion, while it may well be the case that the emergence of meaning is the result of a continuous, adaptive process; second, they seem to be plainly false, at least if we are willing to say that people affected by autism – and thus unable to read others mind –  understand and produce meaning (see this recent paper by [http://people.su.se/~ppagin/papers/Autism5D.pdf Gluer and Pagin]).&lt;br /&gt;
Brian Skyrms and others used evolutionary game theory to evolve proto-languages, so-called “signaling games”, to understand how meaning dynamically emerges without meta-representations (it turns out that meaning can be understood as a form of equilibrium in these evolutionary dynamics). It could be interesting to further develop these insights, adding more realistic features to AB models:&lt;br /&gt;
&lt;br /&gt;
* adding noise&lt;br /&gt;
* explore the same game in different topologies and see if the emergent behaviour depends in some way on constraints on how agents move&lt;br /&gt;
* see if it is possible to evolve language with a proto-grammar&lt;br /&gt;
&lt;br /&gt;
These are just some preliminary considerations. Let me know what you think! [[Jacopo Tagliabue]]&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
* [[Gustavo Lacerda]]: Jacopo, I&#039;m a fan of Simon Kirby&#039;s work.&lt;br /&gt;
&lt;br /&gt;
=== Biological Pathways ===&lt;br /&gt;
&lt;br /&gt;
Loosely defined, biological pathways are networks of molecular interactions that achieve a specific biological function.  I&#039;m interested in using the information we already have about them in the analysis of microarray data.  I have a bunch of half-baked ideas; here are two.  &lt;br /&gt;
&lt;br /&gt;
* [[Steven Lade]] I&#039;m interested in one or both of these.&lt;br /&gt;
* [[Gustavo Lacerda]]: Me too! I&#039;m interested in statistics in the &amp;quot;small n, large d&amp;quot; setting, sparse regression, and incorporating structural knowledge through e.g. strong Bayesian priors.&lt;br /&gt;
&lt;br /&gt;
==== Many hits vs. critical hits ====&lt;br /&gt;
&lt;br /&gt;
[[Rosemary Braun]]&lt;br /&gt;
&lt;br /&gt;
Microarrays assay 10^5-10^6 biological markers per sample.  The most basic analysis is to ask whether each marker, individually, is disease-associated; common multi-marker approach is to sort the markers based on the magnitude of their association with disease, and then ask whether the high-scoring markers are over-represented in some pathways (biological interaction networks).  By systematically performing an enrichment analysis on all known pathways, it is possible to elucidate which ones may play a role in disease. (cf [http://www.ncbi.nlm.nih.gov/pubmed/16199517 GSEA].)&lt;br /&gt;
&lt;br /&gt;
On the other hand, it is well known that the centrality of a molecule in the biological pathway is strongly correlated with its biological importance -- the lethality of knocking out a gene is related to its centrality (eg [http://www.ncbi.nlm.nih.gov/pubmed/11333967 Jeong 2001]).  This finding has been used to study individual markers &#039;within&#039; a given pathway to predict which ones would be the most biologically relevant (eg by ranking the markers based on centrality, ([http://www.ncbi.nlm.nih.gov/pubmed/18586725 Ozgur 2008]).  &lt;br /&gt;
&lt;br /&gt;
One of the drawbacks of GSEA-type enrichment approaches is that they do &#039;&#039;not&#039;&#039; consider the centrality of each marker, ie, they are pathway-topology-ignorant.  To the best of my knowledge, while centrality has been looked at to examine the importance of individual genes to a given function, it has not been incorporated in enrichment analyses.  I would like to answer the question &amp;quot;is a pathway more &#039;&#039;critically&#039;&#039; hit with disease-associate alterations than would be expected by chance alone&amp;quot; using a centrality-aware scoring function.&lt;br /&gt;
&lt;br /&gt;
One very naive way to do this would be to simply scale the single-marker association statistic used in GSEA by the centrality of the gene in the network.  This raises a question of its own, however: to what degree do the results depend on the severity of the scaling?  &lt;br /&gt;
&lt;br /&gt;
Anyway, that&#039;s one half-baked idea.  [Resources available: tons of data; adjacency matrices for pathways represented in KEGG, BioCarta, Reactome, and the NCI/Nature pathway database; useful ancillary functions in R; a cluster for permutation testing/exploring the parameter space.]&lt;br /&gt;
&lt;br /&gt;
==== Gene expression time-course spectra ====&lt;br /&gt;
&lt;br /&gt;
[[Rosemary Braun]]&lt;br /&gt;
&lt;br /&gt;
Consider all the genes involved in a given pathway.  Consider, also, a set of data that gives us the expression values for each gene at a handful of timepoints, eg, before (t=t0) and after  (t=tf) an environmental exposure.&lt;br /&gt;
&lt;br /&gt;
Next, suppose we describe the activity of that pathway by completely connected directed graph, for which the weight of the edge from gene_i to gene_j is given by MI(gene_i(t=t0),gene_j(t=tf)) (in the case of multiple timepoints, we could extend this -- eg transfer enropy).  That is, the weight of each directed edge from gene_i to gene_j would tell us how well gene_i at t=t0 predicts gene_j at t=tf.  &lt;br /&gt;
&lt;br /&gt;
(I suggest the complete graph, rather than using the known pathway topology, because in practice the time differences tf-t0 may result in multiple &amp;quot;hops&amp;quot; -- so we may have correlations between next-next-neighbors rather than nearest neighbors, etc.)&lt;br /&gt;
&lt;br /&gt;
So, we now have a description of signal propagation through the pathway over the time t0-&amp;gt;tf, which we could summarize using the eigenvectors of the Laplacian.  If we have two classes, eg cells which do/don&#039;t respond to the exposure, will we see statistically significant differences in the spectra for certain pathways, and thus infer that those pathways are involved in the response?&lt;br /&gt;
&lt;br /&gt;
Possible pitfall: most time-course experiments only have a handful of samples for each timepoint.&lt;br /&gt;
&lt;br /&gt;
=== Network structure of personality ===&lt;br /&gt;
&lt;br /&gt;
[[Sean Brocklebank | Sean]] is interested in using the methods [http://www.santafe.edu/events/workshops/index.php/CSSS_2009_Santa_Fe-Readings#Scott_Pauls:__Partition_Decoupling_for_Roll_Call_Data presented] by Scott Pauls at SFI on Wednesday to analyze the structure of personality as revealed by personality psychology&#039;s canonical test, the NEO PI-R, and it&#039;s freeware version, the IPIP NEO.&lt;br /&gt;
&lt;br /&gt;
These surveys consist of 240 and 300 questions, respectively, and have been analyzed using traditional factor analysis to reveal the Five Factor Model of personality (FFM, see [http://en.wikipedia.org/wiki/Five_Factor_Model Wikipedia article]). But there is much debate within personality psychology about the exact structure of the factors, and particularly the higher order correlations among them. Traditional factor analysis is not much use in resolving these disputes, but that is just about the only method which has been used so far. I&#039;ve spoken to Scott Pauls about this already, and he says that his method might be useful to help to resolve the issue (see his comments below).&lt;br /&gt;
&lt;br /&gt;
I&#039;ve got a dataset of about 1000 responses to the NEO-PI-R and 21,000 responses to the IPIP NEO, and I can get access to a smaller dataset which also includes some info on FMRI imaging and some other personality tests if necessary.&lt;br /&gt;
&lt;br /&gt;
This is not a subject which I was originally planning on pursuing when I came to the CSSS, but I think that the central importance of this test to personality psychology means that the project will have a reasonable chance of getting published regardless of the results, and anyone working on it should learn some cool data analysis techniques along the way.&lt;br /&gt;
&lt;br /&gt;
If you&#039;d like more information about what I&#039;ve written here, note that I will be talking about the subject over lunch on Tuesday the 16th. Just find my table (or avoid it, depending on your preferences).&lt;br /&gt;
&lt;br /&gt;
I&#039;m in. [[Marek Kwiatkowski]]&lt;br /&gt;
&lt;br /&gt;
[[Murad Mithani]]: I would like to know more about this. &lt;br /&gt;
&lt;br /&gt;
I&#039;d like to talk more. [[Casey Helgeson | Casey ]]&lt;br /&gt;
&lt;br /&gt;
[[Scott Pauls]]:  Some comments on this idea.&lt;br /&gt;
&lt;br /&gt;
I think this is a very interesting application of the PDM or some variant of it).  One of the aspects of the &amp;quot;Five Factor model&amp;quot; is the controversy around the selection of the factors and their putative independence (they are not).  The collection of tools we use will allow for a data driven extraction of factors on multiple scales.  I suspect, although it is not a given, that the top layer of factors will reflect to some extent the &amp;quot;five factors&amp;quot; already used.  However, it will give detailed information on the relationships between the pieces.  Moreover, the multi-scale decomposition should yield a very textured description of the personality factors and their interactions.&lt;br /&gt;
&lt;br /&gt;
A couple of technical points - given the length of the data series (200-300 questions), I would probably limit the analysis to roughly 150 respondents at a time.  The wealth of data available means that one can do multiple experiments using ~150 members allowing for a good analysis of the robustness of the factor results.&lt;br /&gt;
[[Guimei Zhu]] interested in it, i am also curious on persons.&lt;br /&gt;
&lt;br /&gt;
===Modeling behaviors between students and teachers=== &lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:I’m doing some research about a marginalized group of high school students under Chinese elite education policy. These students can’t handle the exam-oriented school circumstance and get ignored and even discriminated. Some of them have character defect. From the six-month field research and data analysis, I find teachers’ attitudes and behaviors are the most significant factors when children grow up. Now I hope to use NetLogo to model the bidirectional behaviors between students and teachers.&lt;br /&gt;
&lt;br /&gt;
Here are some draft ideas I’m thinking about:&lt;br /&gt;
* Student’s properties: learning skill (Sp1), normalized character (Sp2), normalized behavior(Sp3) ,acceptance to teacher (Sp4)&lt;br /&gt;
* Student’s actions:  be willing to learn (Sa1), be willing to associate and communicate (Sa2) &lt;br /&gt;
* Teacher’s properties: salary (Tp1), sense of achievement (Tp2)&lt;br /&gt;
* Teacher’s actions:  encourage students (Ta1), organize social activities (Ta2)&lt;br /&gt;
* Rules:  (I’m still thinking) &lt;br /&gt;
** If teacher acts Ta1----&amp;gt; Sa1----&amp;gt; Sp1 + 1, Sp4+1----&amp;gt; Tp1+1, Tp2+1&lt;br /&gt;
** If teacher acts Ta2----&amp;gt; Sa2----&amp;gt; Sp2 + 1, Sp3 +1---&amp;gt; Tp1+1, Tp2+1&lt;br /&gt;
(Also have the negative rules and combination rules, like Ta1+Ta2---&amp;gt;Sa2----&amp;gt; Sp2 + 1, Sp3 +1)&lt;br /&gt;
&lt;br /&gt;
SOS!!  If you guys have any ideas, suggestions, help about NetLogo, please please please tell me !&lt;br /&gt;
&lt;br /&gt;
Interesting idea, you might want to take a look at the following working papers (they are mathematical (math. epidemiology) in nature):&lt;br /&gt;
&lt;br /&gt;
Katie Diazrlene, Cassie Fett, Griselle Torres-Garcia, Nicolas M. Crisosto (2003) The Effects of Student-Teacher Ratio and Interactions on Student/Teacher Performance in High School Scenarios. MTBI BU-1645-M&lt;br /&gt;
&lt;br /&gt;
Abstract:&lt;br /&gt;
We develop a model that incorporates the impact of sudden-teacher ratio on the performance dynamics of both teachers and students. The model assumes that the members of both populations may be found in three dynamics states: positive, discouraged and reluctant. The role of complex nonlinear interactions between students and teachers, as well as the role of recruitment and intervention, are studied via analytic and numerical studies. Using center manifold theory we find conditions for the existence of a backward bifurcation that support endemic stationary states below the critical threshold value, R0 &amp;lt; 1, when normally only a positive environment would be supported. Our simulations show that in order to maintain a positive environment for students and teachers, R0 must be reduced significantly. Since R0 is a function of student-teacher ratio this can be achieved by decreasing class size.&lt;br /&gt;
&lt;br /&gt;
Corvina Boyd, Alison Castro, Nicolas M. Crisosto, Arlene Evangelista, Christogher Kribs-Zaleta, Carlos Castillo-Chávez (2000) A Socially Transmitted Disease: Teacher Qualifications and High School Drop-Out Rates MTBI BU-1526-M&lt;br /&gt;
&lt;br /&gt;
Abstract&lt;br /&gt;
The main goal of this study is to quantify the impact of teacher interactions on student achievement to facilitate recommending policy strategies that minimize high school dropout rates. This study derives a system of differential equations that examine the effects that teachers have on minority high school students&#039; learning experience in California and Arizona. The first mathematical model focuses on the impact that teacher dynamics have on a school&#039;s faculty composition. Teacher&#039;s dynamics are coupled with a second system that models student responses to teacher preparation and experience in order to investigate the effects of these interactions on high school dropout and completion rates.&lt;br /&gt;
&lt;br /&gt;
If you cannot locate the paper online, let me know, I know some of the authors of the two papers.  Alhaji Cherif&lt;br /&gt;
&lt;br /&gt;
[[Image:student&amp;amp;teacher-Chang.jpg|200px|thumb|left|]]&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:Thank u Alhaji!  I really appreciate if you could tell me how to get the papers. Have you done any research in this area? We should talk about it! Thanks.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:I think this picture could be a better way to explain this project.&lt;br /&gt;
&lt;br /&gt;
===Music Rhythm Pattern Generation with Hierarchies and Dynamics (PROGRAMMERS WANTED!)===&lt;br /&gt;
&lt;br /&gt;
Western based music comes in boring measures. 4 beats, 16 beats and then repeat plus a little modification. Boring! &lt;br /&gt;
&lt;br /&gt;
Even exotic music from India or Bali sticks to one particular measure ... even if it&#039;s some bizarre integer, a prime number say, like 17. But what if we introduce hierarchies of measures?&lt;br /&gt;
&lt;br /&gt;
So lets say a measure is one minute long. Between every beat of your 4 measure I introduce 7 beats. And between the first four of those I introduce 2 beats; between the 2nd 5 beats and between the third and fourth 3 beats each. What does that music sound like!? &lt;br /&gt;
&lt;br /&gt;
Clearly there is synchrony every x beats between different patterns but in between there is something which bears some relationship over time but takes a little listening to understand. &lt;br /&gt;
&lt;br /&gt;
What music is most pleasing? What do you want to hear more of? What is too complicated/random and what is too boring? &lt;br /&gt;
&lt;br /&gt;
I have worked previously on such a system written in Java called the [http://mf.media.mit.edu/pubs/conference/EmonicReport.pdf Emonic Environment]. But this was many years ago and I have learned much about much since then.&lt;br /&gt;
&lt;br /&gt;
What can we create now?&lt;br /&gt;
&lt;br /&gt;
A few people have exhuberated interest including Murad and Casey but I need at least one or two other people who are capable of contributing to the implementation before we can go ahead with the project.&lt;br /&gt;
&lt;br /&gt;
Do you find yourself fascinated by your own attraction to different sorts of rhythm? Do you sense that this summer school could be a pathway for reigniting your own passion for creativity and expression, while maintaining some connection to science? Both Liz Bradley and Peter Dodds encouraged us to nurse the flame fueled by playfulness and creation, to keep ourselves engaged by having fun and staying curious. If a group of us got together and really inspired one another with our ideas and passion, maybe we could make something compelling and bring out the curious 5-year-old latent in all of us.&lt;br /&gt;
&lt;br /&gt;
What are interesting ways to create hierarchies and change them dynamically? What sort of dependence should one structural or functional parameter have on others in order to create sequences of sounds that aren&#039;t just random but rich in some sense?&lt;br /&gt;
&lt;br /&gt;
[[watson]]&lt;br /&gt;
&lt;br /&gt;
*[[Massimo Mastrangeli]]: I guess Watson is referring to polyrithm(ics), which is a way of layering musical compositions with parts having each its own signature/tempo. This is traditional in some african cultures, and is anyway sometime used also in western modern music (e.g. Strawinski&#039;s &amp;quot;Rite of spring&amp;quot;; also, those who know of metal bands like Meshugga, Pain of Salvation and similar can have an immediate idea). Odd time signatures are also quite common in muzak/klezmer tradition (and progressive rock!). They bring an overall impression of dynamism and energy, given that the beat patterns can be richer and more unpredictable than in common 4 beat time signatures.  I like quite a lot this type of music (you had doubt still? :) ), I could contribute to the project with my musical experience. It can be a nice occasion also to learn about new tools. The project may have some substantial physiological/esthetic components to it.&lt;br /&gt;
&lt;br /&gt;
*[[watson]]: hmmm ... yes. this is exactly what I am talking about. very cool to hear you have some experience with this Massimo. right now i am leaning on going ahead with this project. i think we have serious potential to make impact, elucidate new relationships and phenomena and educate in the process. and i think it could be a ton of fun. here are a couple of links i have found which could be of use:&lt;br /&gt;
**[http://fusionanomaly.net/polyrhythms.html this] page talks about history, theory and even mentions chaos.&lt;br /&gt;
**[http://web.mit.edu/cjoye/www/music/tabla/ this] is a good source for tabla samples. tabla is one of the simpler devices that has some melodic structure as well as rhythmic structure to it. we could work with others as well... one thought is even just a drum kit of different sounds (rock style).&lt;br /&gt;
&lt;br /&gt;
===Rebellion===&lt;br /&gt;
The results of Iran&#039;s recently held presidential election (June 12, 2009) is very controversial.  Demonstrations are being held across Iran and some have turned violent with a few fatalities reported.  Demonstrations are also being held in major cities across the world.  It is reminiscent of the Iran&#039;s revolution about 30 years ago.  So, here is an idea for an agent-based modeling of a rebellion; what does it take to tip the balance to successfully influence the election process for a possible re-election?  What kind of networks to model the rebellious groups?  Or, to take it to the extreme, what does it take to have another revolution?  &lt;br /&gt;
[[Mahyar Malekpour]]&lt;br /&gt;
&lt;br /&gt;
[[David Brooks]] This seems to be the same problem as the Gossip suggestion from above.  Perhaps we could combine the two adding factors such as participation hesitation to represent the stability that must be overcome to induce action (participation in gossip or revolution).  Perhaps we could get together with the gossip model team to discuss the potential.&lt;br /&gt;
&lt;br /&gt;
[[Scott Pauls]] There are interesting discussions in the political science literature concerning revolutions in relatively authoritarian regimes.  [http://fds.duke.edu/db/aas/PoliticalScience/faculty/t.kuran/publications T. Kuran] has spent most of his career on such models.  One of his first papers on this is T. Kuran, Now out of never: The element of surprise in the East European Revolution of 1989, World Politics, vol. 44 (October, 1991), pp. 7-48.&lt;br /&gt;
&lt;br /&gt;
===Mesoscopic self-assembly of passive functional components===&lt;br /&gt;
Self-assembly is being recognized in the field of microelectronics as a viable way to assemble multifunctional systems in a cheap and efficient way. Beside speeding up the assembly procedures that are now standard (e.g. pick-and-place), self-assembly is enabling the construction of unique systems which could otherwise be not possible. This is particularly important and promising for devices whose size ranges from microns to millimeters, i.e. devices which are too large to be assembled by supramolecular assembly and also too small to be assembled by robotic assembly. &lt;br /&gt;
&lt;br /&gt;
This project would aim at designing ensembles of electronic components (i.e. devices endowed with electromechanical interconnecting structures which constraint the possible arrangements) and the constraints on the physical environment that would result in the autonomous formation of standalone and functional systems. It is a type of static self-assembly, where the energy is dissipated only while the system is reaching its thermodynamical minimum energy state. I propose agent-based models which should encode physical forces among components and/or templates (e.g. gravity, capillarity, electromagnetic fields, chemical forces), and should bring about a plausible dynamics and parameter space for successful assemblies.&lt;br /&gt;
&lt;br /&gt;
[[Massimo Mastrangeli]]&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
===Guns, Germs and Steel: Modeling the fates of human societies===&lt;br /&gt;
In his hugely influential book &#039;&#039;Guns, Germs and Steel&#039;&#039; J. Diamond tries to answer a question once posed to him by his field assistnat: &amp;quot;Why is it that you white people developed so much cargo and brough it to New Guinea, but we black peope had little cargo of our own?&amp;quot; The book is a verbal model, suggests that the fate of human society is a product of the locally available resources, such as which crops could be domesticated, and the geographic configuration of regions, which then allowed these resources to be transmitted. The book has many intriguing and testable elements. In effect, Diamond describes a network model, where success is determined by connectedness and information transfer. The ideas of GGS can be tested by taking the underlying patterns of resource distribution and feeding them into an explicitly specified the information transfer networks. You can even permute various parts of the system and see whether you would still get the same historical dynamics. [[Alexander Mikheyev | Sasha]]&lt;br /&gt;
&lt;br /&gt;
[[Randy Haas]] Sasha, I have lots of thoughts on this, and it is similar to a problem I&#039;ve considered posting.  I can certainly contribute an anthropoloigcal perspective on the problem, and the archaeology of agricultural origins is an area of specialty for me.  let&#039;s talk about it.&lt;br /&gt;
&lt;br /&gt;
[[Alhaji Cherif]] There is a nice book by Peter Turchin Historical dynamics where he studies cliodynamics and has looked at some of these questions from both empirical and mathematical models.  He has written some papers too on the subjects, too.  His papers might be a good starting point.&lt;br /&gt;
&lt;br /&gt;
[[Nathan Hodas]] I&#039;d like to be in on this.  I&#039;ve pondered a good deal about this since reading the book.  Maybe we should contact Jared Diamond?&lt;br /&gt;
&lt;br /&gt;
===Regional language differentiation===&lt;br /&gt;
The goal of the [http://dare.wisc.edu/?q=node/1 Dictionary of American Regional English] is to capture how colloquial expressions vary across the United States, based on interviews conducted in the mid-20th century. Check out this [http://dare.wisc.edu/?q=node/4 sample entry]. There is also a collection of recordings where &amp;gt;800 people from various regions read the [http://dare.wisc.edu/?q=node/44 same text]. I am not exactly sure what one can do with this resource, but I maybe someone can come up with a good idea. [[Alexander Mikheyev | Sasha]]&lt;br /&gt;
&lt;br /&gt;
===Deconstructing CSSS09===&lt;br /&gt;
One fun and easy application of network theory would be to look at ourselves at the end of the course, using an anonymous survey. What was the social interaction network? How frequently was there &#039;&#039;discussion&#039;&#039; between disciplines and did that lead to productive final projects? Is there a link between the social and final product networks? In prinicple, these data can potentially be linked to those collected by SFI at the beginning of the summer school. This could be an interesting way to see how the summer school (and more broadly interdisciplinary interactions) actually works. These data mihgt also be useful for planning the structure/composition of future classes.  [[Alexander Mikheyev | Sasha]]&lt;br /&gt;
&lt;br /&gt;
[[Wendy Ham]]: I agree Sasha, would love to help out with designing surveys, etc.&lt;br /&gt;
&lt;br /&gt;
[[Margreth Keiler]]: Murad and I had the same idea yesterday, but we thought to make each week a surveys to see how the network change over time and to add also after CSSS surveys. Should we discuss our draft tomorrow at SFI?&lt;br /&gt;
&lt;br /&gt;
===Biodiversity, evolution, modularity--ideas from Doug Erwin&#039;s lecture===&lt;br /&gt;
Here is a list of ideas mostly inspired by Doug Erwin’s lecture. I haven’t written anything very in depth due to lack of time but I think it would be fun to think about how to model any of these topics. Many of the topics are highly interrelated.  I would recommend looking at Doug’s 2007 article on the readings page if interested.&lt;br /&gt;
&lt;br /&gt;
How to model biodiversity.&lt;br /&gt;
Why would greater bio diversity rise out of extinction?&lt;br /&gt;
  Does evolution reach sort of a stability point when all the niches are ‘full’ and is there is a lot of competition?  &lt;br /&gt;
  Does lack of competition (due to extinction or whatever) create the opportunity to diversify more?&lt;br /&gt;
Why does biodiversity cluster?&lt;br /&gt;
  Two models in the paper:&lt;br /&gt;
  Genetic or developmental hypothesis: mutation driven model of change.  Corresponds to ‘supply driven’ innovation in economics&lt;br /&gt;
  Ecospace hypot: variations in ecological opportunity control the success of major new morphologies.  Corresponds to&lt;br /&gt;
 ‘demand driven’ innovation.&lt;br /&gt;
Genetic kernels&lt;br /&gt;
  How are they developed?&lt;br /&gt;
  Why did they all develop at the same time after extinction?&lt;br /&gt;
  Why did animals develop kernels and not plants?&lt;br /&gt;
Modularity. http://en.wikipedia.org/wiki/Modularity_(biology)&lt;br /&gt;
  Why do biological organisms develop modules?&lt;br /&gt;
  How many components make up one module?&lt;br /&gt;
  Is there a difference in the modularity of ‘higher’ versus ‘lower’ level organisms?  (There is well studied modularity&lt;br /&gt;
 in the central nervous systems of long swimming organisms such as leeches or electric eels).&lt;br /&gt;
  Why do nonvertebrates develop locomotion modules (repeating, identical body part segments hooked together in some way to&lt;br /&gt;
 allow motion) but vertebrates do not (only have 2 or 4 legs).&lt;br /&gt;
[[Corinne Teeter]]&lt;br /&gt;
&lt;br /&gt;
===Economic Geography in the Lake Titicaca Basin===&lt;br /&gt;
&lt;br /&gt;
Moved to [http://www.santafe.edu/events/workshops/index.php/Economic_Geography_and_State_Emergence Economic Geography and State Emergence]&lt;br /&gt;
&lt;br /&gt;
===“Let it rain” - Simulating flood events by Agent-Based Modeling and GIS=== &lt;br /&gt;
&lt;br /&gt;
How much rain is required to flood the Grand Canyon?&lt;br /&gt;
&lt;br /&gt;
The idea is to build an Agent-Based Model to simulate the impact of increased rainfall on flow dynamics of a specific river network of the Grand Canyon region. The agent for the ABM is the water flow (=runoff) moving from cell to cell, dependent upon topography (=slope/gradients of the neighboring cells). &lt;br /&gt;
The flow dynamics are therefore directly related to the Digital Elevation Model (DEM) of the region and indirectly to environmental parameters such as soil/substrate (e.g. stratigraphical units) and land cover/use (e.g. bare soil, shrubs, forest, settlement). The latter parameters could be integrated into the ABM by assuming a possible range of values influencing flow dynamics in relation to e.g. infiltration (if the soil is saturated, runoff occurs) and vegetation cover (high vegetation cover leads to high interception, less runoff). &lt;br /&gt;
The different data layers can be integrated into the ABM by GIS (Geographical Information Systems). &lt;br /&gt;
&lt;br /&gt;
[[Image:Theoretical_framework.jpg|480px|thumb|Theoretical_framework]] &lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
What is the relationship between rainfall pattern and runoff/ flooding?&lt;br /&gt;
&lt;br /&gt;
What effects do topographical/environmental parameters (e.g. slope gradients, substrate, vegetation cover) have on runoff/flooding?&lt;br /&gt;
&lt;br /&gt;
Are there non-linearities related to the dynamical flow network? &lt;br /&gt;
&lt;br /&gt;
What are possible feedback mechanisms? (e.g. positive feedback mechanism: increased rainfall → increased runoff  → erosion and hence deepening of channels → steeper slope gradients → increased runoff)&lt;br /&gt;
&lt;br /&gt;
Looking forward to exchanging ideas!&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]] Hi Almut, As I&#039;ve said, I think this is well suited to modelling with differential equations. Particularly if, as I assume to be the case, the GIS data comes already in a rectangular grid. Having said that, there are some complementary aspects for which ABM would be well-suited. For instance, following agents as they form streams, or if you were to have a localised thunderstorm. We could possibly do this in parallel and see if they match and/or use each method&#039;s particular advantages.&lt;br /&gt;
&lt;br /&gt;
You may be interested in this paper, which I found through the SFI library database: [http://pubs.usgs.gov/sir/2007/5009/pdf/sir_2007-5009.pdf]. I think this one is more complicated though, because they need to consider a three-dimensional water table. More generally, what sort of modelling (if any) do people usually do in these sorts of topics?&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]] I am interested in this project!  I have studied these concepts in many of my classes.  Through past research, I&#039;ve looked at storm/rain events, and how a large runoff from stormwater causes high contaminant concentrations in streams and rivers. This research was done for urban, forest, and agricultural landuse types.(I will try to find the results of this research soon).   Another thing to think about is the time between rain events.  A long timespan between rainfall events will cause the soil to become unsaturated, and the next rainfall may have little effect on the stream.   I also will not be around much this weekend, so would it be possible to meet sometime tomorrow (Thursday 6/18)?&lt;br /&gt;
&lt;br /&gt;
===Scalable (parallel) Spatial Agent-Based Models===&lt;br /&gt;
&lt;br /&gt;
This project idea is an exploration of what happens to agent-based models “in the large?”  For example,&lt;br /&gt;
*	As the number of interacting agents in a model increases, what happens to the dynamics of the model?&lt;br /&gt;
*	What happens as the size of the agents’ domain increases (e.g. simulating a neighborhood versus simulating a city or country)&lt;br /&gt;
*	How do the properties of the model change?  Are there scaling laws in effect ?&lt;br /&gt;
&lt;br /&gt;
In order to investigate these issues, we need a scalable simulation, i.e. a parallel implementation of the model that allows us to introduce arbitrarily large numbers of agents.  There are many approaches to doing this [lit review needed here!], but for this project, I would like to focus on spatial agent-based models: models where there are N agents who exist in a geographical domain and possess “vision,” where vision can be optical/eye-based, local communications (audible or electromagnetic line of site).  &lt;br /&gt;
A couple such models which can serve as starting points include the flocking model (aka “boids”) and Epstein’s model of civil violence (or its derivative “Rebellion” model).  &lt;br /&gt;
&lt;br /&gt;
The idea is to decompose the spatial domain into independent subdomains, distribute those subdomains to nodes on a compute cluster, amalgamate the results, wash-rinse-repeat.  One possible approach is to use an adaptive mesh refinement (AMR) such as those used by engineers for finite element analysis or by physicists in hydrodynamics simulations.  One concrete example, using a quad-tree decomposition to keep agent density constant on each processor (and thereby keeping computational load balanced), is as follows:&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Image:Particle.PNG|thumb|left|An example showing decomposition of a particle system using a quad-tree.  Each resulting square has (roughly) the same number of particles in it.  Can this approach be used for parallelizing spatial agent-based models ?]] &lt;br /&gt;
I have a cluster available for implementation, along with the MPI libraries for parallel programming.  Other suggested areas of expertise that would greatly benefit the project include:&lt;br /&gt;
Someone interested in evaluating simulation results, who can help ensure that we don’t break the model by decomposing it.&lt;br /&gt;
Someone interested in analysis, for exploring the effects of scaling on the model.&lt;br /&gt;
Someone interested in high-performance computing, to help with programming (probably c/c++ with MPI)&lt;br /&gt;
&lt;br /&gt;
From talking to folks in our class, some other benefits of the approach include &lt;br /&gt;
*	improving running time for very-long-running simulations&lt;br /&gt;
*	aerospace applications—decomposing the National Air Space into computationally tractable subdomains for modeling or real-world purposes.&lt;br /&gt;
*	Applying the decomposition technique to other model domains.  For example, can a similar technique be used to decompose a social network, especially if a single model has both geographic spatial domains and also network domains?&lt;br /&gt;
&lt;br /&gt;
Other approaches suggested by classmates have included implementation on GPUs (graphics processors used for general purpose computation) and sticking to an SMP implementation (multicore workstations with shared memory--simpler implementation/perhaps not as scalable), versus a distributed-memory cluster.  I welcome further ideas that might help kick-start this zany scheme.&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]] What I&#039;m about to say seems kind of obvious, and I&#039;m not sure it helps you at all, but I can&#039;t help but say that if your &#039;averaged behaviour&#039; converges for very large numbers of agents, you&#039;d in effect be modelling some partial differential equation.&lt;br /&gt;
&lt;br /&gt;
[[Matt McMahon]] Thanks, Steven.  Not obvious to me though ... Can you elucidate?&lt;br /&gt;
&lt;br /&gt;
==Final Projects==&lt;br /&gt;
&lt;br /&gt;
Please place your final project ideas here: details should include clear and objective outlines.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=31625</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=31625"/>
		<updated>2009-06-17T23:51:04Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Statistical physics: applications to complex systems */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;For ease of scheduling, please make amendments to the schedule&#039;&#039;&#039;&lt;br /&gt;
&lt;br /&gt;
Also, a [[tutorial outline page]] wouldn&#039;t be bad.&lt;br /&gt;
&lt;br /&gt;
== Information theory ==&lt;br /&gt;
Discussions and resources are archived at the [[CSSS 2009 Santa Fe-Information theory tutorial]] page. Also see this page for recent/current follow up discussion...&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Liliana Salvador]]: Is there anyone still interested in the tutorial about Kolmogorov Complexity and its applications? I know that Gustavo and Lucas are, but if no one else is interested, we will just have a chat about this.&lt;br /&gt;
&lt;br /&gt;
[[watson]]: yes!&lt;br /&gt;
&lt;br /&gt;
[[Hamid Benbrahim]]: I am very interested!&lt;br /&gt;
&lt;br /&gt;
== [[MATLAB / Mathematica]] ==&lt;br /&gt;
[[Steven Lade]]: Hiro, I will happily give a tutorial on the basics of these languages (but only the basics, I don&#039;t use any of the fancy bits). Anyone here know if the labs here run MATLAB/Mathematica?&lt;br /&gt;
&lt;br /&gt;
If there is anyone else interested (leave your name) I&#039;ll arrange a time, otherwise I&#039;ll talk directly with you Hiro.&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]]:  I would also like a tutorial on MATLAB.  I know some things about it, but never really learned the basics so it takes me a long time to do things.  The computer labs should be equipped with MATLAB.  I also have a fairly updated version on my laptop.&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]]I&#039;m also interested! Also know some basics but I usually program in Fortran so I&#039;d love to learn it.&lt;br /&gt;
&lt;br /&gt;
Steven, many thanks! I think that the computers in the lab have MATLAB. If not, we can access it through my school&#039;s server as long as the internet connection is stable. [[Hirotoshi Yoshioka]]/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
[[Brian Hollar]] I&#039;m also very interested!  I&#039;ve never used these languages, but have some basic knowledge of Java, NetLogo, and FORTRAN.  I&#039;d appreciate the help and would love to learn.&lt;br /&gt;
&lt;br /&gt;
[[Milena Tsvetkova]] Count me in! Steve, what is a good time for you?&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]: Hi ppl. Could I join in? I know MATLAB and I would like to further polish my MATLAB skills. Meanwhile I want to learn Mathematica.&lt;br /&gt;
&lt;br /&gt;
Thanks for coordinating the tutorial and for &#039;setting up&#039; the facilities, Steve and Lucas.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:Hello,I&#039;m here! Thank you guys for this tutorial.I&#039;m a kid in MATLAB and very courious about it.I know M is a giant in Mathematics,Statistic Analysis,Images and Genetic Algorithm and really want to learn more about that.By the way, I have the installation of Matlab 7.0 and I&#039;ll take it in my flash drive.If you have updated version, that would be better.&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]: Too late for this week I think, and next week is pretty full, so let&#039;s aim for 7PM Monday June 22.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Elliot Martin]]: I would be happy to help out with the MATLAB tutorial if you want. I don&#039;t use any of the fancy packages either though.&lt;br /&gt;
&lt;br /&gt;
[[Marek Kwiatkowski]]: Excellent tutorial idea, I&#039;ll be there.&lt;br /&gt;
&lt;br /&gt;
[[Margreth Keiler]]: I would like to join. I&#039;ve never used these languages but I would like to get an idea.&lt;br /&gt;
&lt;br /&gt;
[[Liliana Salvador]]: Good idea. I am in! I have some knowledge of matlab (but never used very fancy packages). I would like to learn Mathematica.&lt;br /&gt;
&lt;br /&gt;
== [[Statistical physics: applications to complex systems]] ==&lt;br /&gt;
[[Lucas Lacasa]]:Statistical physics is a rather huge field, so I&#039;m thinking on building a tutorial that focus on some specific topics related to complexity science in a chat-like level, namely:&lt;br /&gt;
&lt;br /&gt;
- Fundamentals of statistical mechanics: ensembles, partition function and associated thermodynamic quantities (free energy, entropy) and some other basic stuff.&lt;br /&gt;
&lt;br /&gt;
- Critical phenomena: Phase transitions in physical, social, and algorithmic systems. Self-organized criticality as the counterpart of a critical phase transition. Relation between phase transitions and local bifurcations of dynamical systems.&lt;br /&gt;
&lt;br /&gt;
- Monte Carlo simulations, ergodic theorem &lt;br /&gt;
&lt;br /&gt;
- Specific example gathering all of the above: Ising model&lt;br /&gt;
&lt;br /&gt;
- Other related topics that you may like to listen to&lt;br /&gt;
&lt;br /&gt;
Maybe we could schedule it for next week, something like next wednesday (17) at 7pm? (provided that no PRIORITY things such as basketball or soccer games are scheduled). If anyone else is interested please leave your name. Depending on the &#039;audience&#039; we can fix one place or another...&lt;br /&gt;
&lt;br /&gt;
*[[Steven Lade]] Fantastic, I&#039;m in. But there is the &#039;Music on the Hill&#039; 6-8pm Wednesdays. Is 8pm getting too late for &#039;work&#039;? Or I miss an hour of the music. (Tuesday and thursdays there&#039;s the nonlinear dynamics labs)&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] You&#039;re right. What about friday 19 after lunch?&lt;br /&gt;
&lt;br /&gt;
*[[Roozbeh Daneshvar]] I&#039;d like to join this one.&lt;br /&gt;
&lt;br /&gt;
*[[Corinne Teeter]] I&#039;d also like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] I&#039;m interested too.&lt;br /&gt;
&lt;br /&gt;
*[[Gustavo Lacerda]]: I&#039;m interested.&lt;br /&gt;
&lt;br /&gt;
*[[Allison Shaw]]: I&#039;d like to join as well.&lt;br /&gt;
&lt;br /&gt;
*[[watson]]: maybe you guys should rope&lt;br /&gt;
&lt;br /&gt;
*[[Andrew Berdahl]] into this as well. sounds like he could have something to add...&lt;br /&gt;
&lt;br /&gt;
*[[Elliot Martin]]: I could talk a bit about self organized criticality, and a bit about some mean field theory if you want some company&lt;br /&gt;
&lt;br /&gt;
*[[Jacopo Tagliabue]]: I&#039;m interested, especially if tutorial includes a for-dummies part.&lt;br /&gt;
&lt;br /&gt;
*[[Massimo Mastrangeli]]: I will join you!&lt;br /&gt;
&lt;br /&gt;
*[[Lara Danilova-Burdess]]: Excellent. I&#039;d like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Mareen Hofmann]]: Super! I&#039;m in as well.&lt;br /&gt;
&lt;br /&gt;
*[[Margreth Keiler]]: I&#039;m interested, and join the for-dummies part ;-)&lt;br /&gt;
&lt;br /&gt;
*[[Liliana Salvador]]: I am in!&lt;br /&gt;
&lt;br /&gt;
*[[Varsha Kulkarni]]: I&#039;d like to come!&lt;br /&gt;
&lt;br /&gt;
*[[Hamid Benbrahim]]: I wold like to come and learn!&lt;br /&gt;
&lt;br /&gt;
== [[Mathematical modeling in ecology ]] ==&lt;br /&gt;
If we want to do this before the talks next week, Monday evening? &lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] whoah, I wish i had an overview on the whole field... &lt;br /&gt;
But a subset of this are food webs: recommended readings for the next week&#039;s talks of Jennifer Dunne &amp;amp; Neo Martinez are &lt;br /&gt;
Berlow et al. 2009 Simple predictions of interaction strengths in complex food webs&lt;br /&gt;
and &lt;br /&gt;
Dunne et al. 2008 Compilation and network analysis of Cambrian food webs &lt;br /&gt;
(i can send both if you&#039;re interested). This is the latest and probably best of their research agenda, so we could discuss them, and Sasha &amp;amp; me could talk about different approaches/remaining big unsolved questions of community ecology. It would be cool if it&#039;d happen before the talks (this would enable better questions and discussion during the talks), but looking at our schedule, there&#039;s not much chance for this... &lt;br /&gt;
 &lt;br /&gt;
About other ecol.modeling:&lt;br /&gt;
I guess I could give a general introduction to it, which will probably be biased towards the stuff i actually know something about- ODE-based modeling, networks and probably adaptive dynamics. For the sake of complexity, I can tell you on what fields they use other types of models (e.g. individual-based or spatial distribution models), but i don&#039;t know too much about the details of these.&lt;br /&gt;
&lt;br /&gt;
*[[Caroline Farrior]]  I agree an overview of the whole field is difficult.  I would be willing to take part in this discussion and talk about the kinds of work I do with forest models and models I have seen done in many other areas of Ecology.  There a lot of different kinds of models in Ecology which all have their own goals and utilities in combination with data and ideas.  I would be very happy to listen to and perhaps contribute to such a discussion.&lt;br /&gt;
&lt;br /&gt;
*[[Roozbeh Daneshvar]]  I&#039;d like to join. I do not have much background in this area and any amount of review before the relevant classes is highly appreciated.&lt;br /&gt;
&lt;br /&gt;
*[[Marek Kwiatkowski]] I would be interested in learning about this too.&lt;br /&gt;
&lt;br /&gt;
*[[Andrew Noble]]  This all sounds great.  I&#039;d be happy to lead a brief overview of stochastic process models in community ecology (focusing on Hubbell&#039;s neutral theory of biodiversity).  How about next Wednesday at 7pm?  I&#039;d like to attend the MaxEnt workshop Monday evening, and there are conflicts with Hubler&#039;s nonlinear workshops on Tuesday and Thursday.&lt;br /&gt;
&lt;br /&gt;
*[[Jacopo Tagliabue]]  I&#039;d like to join, since it sounds very interesting. I do not have much background, so some introductory remarks will be appreciated!&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] I&#039;m in&lt;br /&gt;
&lt;br /&gt;
*[[Steven Lade]] Yep sounds great -- for scheduling just be aware there&#039;s also the &#039;music on the hill&#039; Wed 6-8pm.&lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] Yeah, you have to choose between music and science here, we have such a tight schedule :( So, the final plan looks like: i will give an outline of math. modeling in ecology in 10 minutes, and after that every ecologist who wants and is there (including me) talks about his-her &#039;specialty&#039; in cca 5 minutes. Speakers please: forget the details, concentrate on what we already know on your field-what we learned from using your method, and where are the major questions. thx for every contribution!&lt;br /&gt;
&lt;br /&gt;
== [[(Evolutionary) Game Theory]] ==&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]: Since there are a couple requests for this I&#039;d be happy to organize a chat about game theory and evolutionary game theory.  I can give an intro to some basic ideas in evolutionary game theory, namely the hawk-dove game, prisoner&#039;s dilemma, pure vs mixed vs conditional strategies, Nash equilibrium, evolutionarily stable strategies, and neighbor-invading and convergent stable strategies.  Presumably there are people out there with more expertise in general game theory, who could join in...&lt;br /&gt;
&lt;br /&gt;
In terms of a time, since the evenings look pretty crowded, how about at 4:45 after the last lectures, either Tues or Thurs this week, or some day next week?&lt;br /&gt;
&lt;br /&gt;
Post if you&#039;re interested.&lt;br /&gt;
&lt;br /&gt;
I&#039;m interested. [[Marek Kwiatkowski]]&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]] I&#039;m interested 2&lt;br /&gt;
&lt;br /&gt;
Thanks! Interested as well. [[Mauricio Gonzalez-Forero]]&lt;br /&gt;
&lt;br /&gt;
[[Mareen Hofmann]] I&#039;d like to join as well! Regarding a time: I&#039;d suggest Thursday after the last lecture.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]: Thank u guys. I&#039;m in!&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]: Great, let&#039;s do this Thursday after the last lecture (4:45ish).  I&#039;m just planning to chat about the concepts I listed above, so anyone with more knowledge in game theory is more than welcome to join in.&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka]]: I&#039;m interested too.&lt;br /&gt;
&lt;br /&gt;
[[Nathan Hodas]]:  Please count me in!&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
**I second this request, particularly nonlinear TS and/or using TISEAN (Matt McMahon)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
** [[Lucas Lacasa]] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
** [[Steven Lade]] I&#039;d like to hear about this too; can you schedule a tutorial?&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann, Roozbeh Daneshvar, [[Massimo Mastrangeli]])&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
** [[watson]], June 16: So Peter Dodds and previously Scott Pauls touched upon this (actually Peter kind of skipped it), but I missed most of that. I would like to either sit in on a tutorial or do a working group...&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
*If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
*Fitting high dimensional data with functions--is there such thing as 4D maximum likelihood estimation (MLE)?  Also how to tell if two &#039;blobs&#039; of high dimensional data are statistically the same or different.[[Corinne Teeter]]&lt;br /&gt;
** The MLE is defined for any parameter vector, i.e. any number of dimensions. Finding it is a different story, and can be hard if the objective is not convex. The fully non-parametric (&amp;quot;assumption-free&amp;quot;) way to do this is a two-sample test. For 1D data, you could use something like the [http://en.wikipedia.org/wiki/Kolmogorov-Smirnov_test#Two-sample_Kolmogorov.E2.80.93Smirnov_test Kolmogorov-Smirnov test] or [http://en.wikipedia.org/wiki/Cram%C3%A9r%E2%80%93von-Mises_criterion#Cram.C3.A9r-von-Mises_test_.28two_samples.29 Cramer-von Mises criterion]. Essentially you are stuffing the points from sample 2 into bins defined by the points from sample 1 (or vice-versa): the null hypothesis is that the bins are filled uniformly. You want to find a generalization of this into higher dimensions. I imagine that textbooks on spatial statistics would have this information.&lt;br /&gt;
**UPDATE: I think you could use Voronoi cells as your bins, and this works in any number of dimensions! -[[Gustavo Lacerda]]&lt;br /&gt;
**I propose investigating this topic empirically with a Smirnov test in the upper common room soon. [[watson]]&lt;br /&gt;
&lt;br /&gt;
*Bayesian inference. Maximum likelihood estimation. (requested by Steve Lade)&lt;br /&gt;
** I&#039;d be happy to give a &amp;quot;casual chat&amp;quot; on this. [[Gustavo Lacerda]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d like to learn about normal modes and the Lagrangian and/or Hamiltonian formulation of classical mechanics.  -[[Gustavo Lacerda]] &lt;br /&gt;
**I would be glad to discuss this with you.  You might also be interested in how these deterministic systems give rise to randomness [[Nathan Hodas]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d like to learn some beyond-the-basic econometrics and data analysis, possibly focusing on how to build models in social sciences. Anyone?  -[[Jacopo Tagliabue]] and [[Roozbeh Daneshvar]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d love to get introduced to game theory ([[Massimo Mastrangeli]] and [[Roozbeh Daneshvar]] and [[Nathan Hodas]])&lt;br /&gt;
&lt;br /&gt;
* Anyone can tell me about graph grammars? ([[Massimo Mastrangeli]])&lt;br /&gt;
** I&#039;d second this. The first two links on [http://www.google.com/search?q=graph+grammars this search] look good, but I know nothing about it... [[watson]]&lt;br /&gt;
&lt;br /&gt;
* Could someone give a quick overview of percolation theory? [[Allison Shaw]]&lt;br /&gt;
&lt;br /&gt;
* Would anyone be willing to give a primer on artificial intelligence and machine learning? [[Nathan Hodas]]&lt;br /&gt;
** Note: this is an extremely broad swath of topics you are inquiring about. My advice is to narrow down what you are looking for by at least reading a few sentences from summaries of the sub topics when you search for those key words on Google... [[watson]]&lt;br /&gt;
** I&#039;ll be very interested too in basic topics in machine learning [[Jacopo Tagliabue]]&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=31423</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=31423"/>
		<updated>2009-06-16T00:01:59Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* (Evolutionary) Game Theory */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
&#039;&#039;&#039;For ease of scheduling, please make amendments to the schedule&#039;&#039;&#039;&lt;br /&gt;
&lt;br /&gt;
Also, a [[tutorial outline page]] wouldn&#039;t be bad.&lt;br /&gt;
&lt;br /&gt;
== [[Information theory]] ==&lt;br /&gt;
[[Steven Lade]]: Well, nobody responded to my request so perhaps I&#039;ll do it myself :) I learnt a little at another summer school, so maybe I&#039;m the best qualified, I was just hoping I wasn&#039;t. :)&lt;br /&gt;
&lt;br /&gt;
Maximum entropy comes out of information theory (which I&#039;m not expert in, so if there&#039;s someone knowledgeable to help me there, that would be great). It states simply that the most likely state of a system is the one which maximises its (information-theoretic) entropy. The entropy of statistical mechanics comes naturally from it: indeed, stat mech can be viewed as a subset of information theory from this perspective. But you can apply it to any sort of system, not just physics. It&#039;s the closest thing to a &#039;theory of complex systems&#039; that I&#039;ve seen!&lt;br /&gt;
&lt;br /&gt;
Tentative time: 7PM, Monday June 15. Add your name if interested.&lt;br /&gt;
&lt;br /&gt;
* I am interested and will happily wear the skeptic hat: essentially if the entropy is sensitive to your parametrization, it loses much of its meaning. I think this is why some people (such as Amari) like to do &amp;quot;coordinate-free statistics&amp;quot;. -Gustavo Lacerda&lt;br /&gt;
&lt;br /&gt;
* I&#039;m no expert, but I do have information theory basics under my belt... and more importantly,  I happen to have some introductory info. theo. latex slides for a talk I recently gave.  So I can offer help with the background, and then sit back &amp;amp; listen to the higher level, post-Shannon applications :) -[[Rosemary Braun]]&lt;br /&gt;
** On edit: I just noticed Lucas &amp;amp; Roozbeh requested an info theo tutorial -- shall we just roll it all together? -[[Rosemary Braun]]&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] Great, I&#039;m in. Steve, with the Max-ent stuff you mean Jaynes? I&#039;ve seen Jaynes formalism two or three times but never saw the difference with a merely Lagrange multiplier optimization, so great to hear about that. Rosemary, I would also be glad to learn some information theory stuff. I know the ultra-basics (Shannon entropy, mutual information, and not much more...).&lt;br /&gt;
&lt;br /&gt;
[[Angela Onslow]]: I&#039;d like to come along to this&lt;br /&gt;
&lt;br /&gt;
[[Roozbeh Daneshvar]]: FYI, We have ABM tutorial on Monday, June 15th starting at 04:30 PM. I assume that it is finished by 07:00 PM.&lt;br /&gt;
&lt;br /&gt;
[[Kate Behrman]]: I also do not claim to be an expert, but have gone over a lot of the theory that is commonly used in biology. I would like to know what physicists think. Count me in!&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]: Rosemary, would be great if you could start with information theory. Lucas, yes I do mean Jaynes. Lagrange multiplier optimisation is really all that happens, so maybe it is all the same -- I confess I don&#039;t know much stat mech either! This session is going to be very much everyone contributing I think. And sounds like you may know more than me, Kate.&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]: I&#039;d like to come -- I&#039;ve had the basics of information theory, but could definitely use a refresher and I&#039;d love to learn the more advanced stuff.&lt;br /&gt;
&lt;br /&gt;
[[watson]]: Sounds great. I know nothing about entropy maximization (other than the basic statement of the [http://en.wikipedia.org/wiki/Second_law_of_thermodynamics 2nd law of thermodynamics]). But I would be glad to help out Rosemary with explaining some info theory stuff... Rosemary, perhaps we can chat before Monday. I&#039;m thinking: entropy, conditional entropy, mutual information and possibly some topics beyond.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Elliot Martin]]: There are some differences between maximum entropy in thermodynamics, and what Jaynes does. I would be happy to help out if you want, but I just know a little bit about this stuff.&lt;br /&gt;
&lt;br /&gt;
[[Massimo Mastrangeli]]: I am definitely not an expert, anyway I had several bits of information theory throughout time, so I&#039;d like to wrap it up somehow. I&#039;ll join you.&lt;br /&gt;
&lt;br /&gt;
Lara Danilova-Burdess Count me in&lt;br /&gt;
&lt;br /&gt;
[[Matt McMahon]]: I&#039;m in.&lt;br /&gt;
&lt;br /&gt;
[[Erin Taylor]]: Thanks Steven! I&#039;ll be there.&lt;br /&gt;
&lt;br /&gt;
[[Liliana Salvador]]: Hey! This is great! I would love to join. I studied some information theory some time ago and its relationship with Kolmogorov Complexity (KC). It was a long time ago, but this is a good excuse to revise it. Any interest in hearing about this? Maybe I could give some basic introduction about KC and its relationship with information theory and then we could discuss the advantages and disadvantages of each method to measure information. What do you think?&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]] I&#039;m interested in Kolmogorov, Chaitin and all these crazy people. So great!&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]] OK, so to summarise, we have (correct me if I&#039;ve missed something): Rosemary and Watson on introduction to information theory, Liliana on Kolmogorov Complexity, me on MaxEnt. (Plus a couple of people like Elliot and Kate pitching in where relevant.) To these presenters: in planning what you intend to discuss please keep in mind we have a lot to cover in this tutorial at the end of a long day and I&#039;m sure there&#039;ll be lots of questions!&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]] Final update: We&#039;ve trimmed the contributor list to Rosemary, Watson and me. Liliana and Gustavo will schedule another time.&lt;br /&gt;
&lt;br /&gt;
== [[MATLAB / Mathematica]] ==&lt;br /&gt;
[[Steven Lade]]: Hiro, I will happily give a tutorial on the basics of these languages (but only the basics, I don&#039;t use any of the fancy bits). Anyone here know if the labs here run MATLAB/Mathematica?&lt;br /&gt;
&lt;br /&gt;
If there is anyone else interested (leave your name) I&#039;ll arrange a time, otherwise I&#039;ll talk directly with you Hiro.&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]]:  I would also like a tutorial on MATLAB.  I know some things about it, but never really learned the basics so it takes me a long time to do things.  The computer labs should be equipped with MATLAB.  I also have a fairly updated version on my laptop.&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]]I&#039;m also interested! Also know some basics but I usually program in Fortran so I&#039;d love to learn it.&lt;br /&gt;
&lt;br /&gt;
Steven, many thanks! I think that the computers in the lab have MATLAB. If not, we can access it through my school&#039;s server as long as the internet connection is stable. [[Hirotoshi Yoshioka]]/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
[[Brian Hollar]] I&#039;m also very interested!  I&#039;ve never used these languages, but have some basic knowledge of Java, NetLogo, and FORTRAN.  I&#039;d appreciate the help and would love to learn.&lt;br /&gt;
&lt;br /&gt;
[[Milena Tsvetkova]] Count me in! Steve, what is a good time for you?&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]: Hi ppl. Could I join in? I know MATLAB and I would like to further polish my MATLAB skills. Meanwhile I want to learn Mathematica.&lt;br /&gt;
&lt;br /&gt;
Thanks for coordinating the tutorial and for &#039;setting up&#039; the facilities, Steve and Lucas.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:Hello,I&#039;m here! Thank you guys for this tutorial.I&#039;m a kid in MATLAB and very courious about it.I know M is a giant in Mathematics,Statistic Analysis,Images and Genetic Algorithm and really want to learn more about that.By the way, I have the installation of Matlab 7.0 and I&#039;ll take it in my flash drive.If you have updated version, that would be better.&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]: Too late for this week I think, and next week is pretty full, so let&#039;s aim for 7PM Monday June 22.&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Elliot Martin]]: I would be happy to help out with the MATLAB tutorial if you want. I don&#039;t use any of the fancy packages either though.&lt;br /&gt;
&lt;br /&gt;
[[Marek Kwiatkowski]]: Excellent tutorial idea, I&#039;ll be there.&lt;br /&gt;
&lt;br /&gt;
[[Margreth Keiler]]: I would like to join. I&#039;ve never used these languages but I would like to get an idea.&lt;br /&gt;
&lt;br /&gt;
[[Liliana Salvador]]: Good idea. I am in! I have some knowledge of matlab (but never used very fancy packages). I would like to learn Mathematica.&lt;br /&gt;
&lt;br /&gt;
== [[Statistical physics: applications to complex systems]] ==&lt;br /&gt;
[[Lucas Lacasa]]:Statistical physics is a rather huge field, so I&#039;m thinking on building a tutorial that focus on some specific topics related to complexity science in a chat-like level, namely:&lt;br /&gt;
&lt;br /&gt;
- Fundamentals of statistical mechanics: ensembles, partition function and associated thermodynamic quantities (free energy, entropy) and some other basic stuff.&lt;br /&gt;
&lt;br /&gt;
- Critical phenomena: Phase transitions in physical, social, and algorithmic systems. Self-organized criticality as the counterpart of a critical phase transition. Relation between phase transitions and local bifurcations of dynamical systems.&lt;br /&gt;
&lt;br /&gt;
- Monte Carlo simulations, ergodic theorem &lt;br /&gt;
&lt;br /&gt;
- Specific example gathering all of the above: Ising model&lt;br /&gt;
&lt;br /&gt;
- Other related topics that you may like to listen to&lt;br /&gt;
&lt;br /&gt;
Maybe we could schedule it for next week, something like next wednesday (17) at 7pm? (provided that no PRIORITY things such as basketball or soccer games are scheduled). If anyone else is interested please leave your name. Depending on the &#039;audience&#039; we can fix one place or another...&lt;br /&gt;
&lt;br /&gt;
*[[Steven Lade]] Fantastic, I&#039;m in. But there is the &#039;Music on the Hill&#039; 6-8pm Wednesdays. Is 8pm getting too late for &#039;work&#039;? Or I miss an hour of the music. (Tuesday and thursdays there&#039;s the nonlinear dynamics labs)&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] You&#039;re right. What about friday 19 after lunch?&lt;br /&gt;
&lt;br /&gt;
*[[Roozbeh Daneshvar]] I&#039;d like to join this one.&lt;br /&gt;
&lt;br /&gt;
*[[Corinne Teeter]] I&#039;d also like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] I&#039;m interested too.&lt;br /&gt;
&lt;br /&gt;
*[[Hirotoshi Yoshioka]]: I&#039;d like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Gustavo Lacerda]]: I&#039;m interested.&lt;br /&gt;
&lt;br /&gt;
*[[Allison Shaw]]: I&#039;d like to join as well.&lt;br /&gt;
&lt;br /&gt;
*[[watson]]: maybe you guys should rope&lt;br /&gt;
&lt;br /&gt;
*[[Andrew Berdahl]] into this as well. sounds like he could have something to add...&lt;br /&gt;
&lt;br /&gt;
*[[Elliot Martin]]: I could talk a bit about self organized criticality, and a bit about some mean field theory if you want some company&lt;br /&gt;
&lt;br /&gt;
*[[Jacopo Tagliabue]]: I&#039;m interested, especially if tutorial includes a for-dummies part.&lt;br /&gt;
&lt;br /&gt;
*[[Massimo Mastrangeli]]: I will join you!&lt;br /&gt;
&lt;br /&gt;
*[[Lara Danilova-Burdess]]: Excellent. I&#039;d like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Mareen Hofmann]]: Super! I&#039;m in as well.&lt;br /&gt;
&lt;br /&gt;
*[[Margreth Keiler]]: I&#039;m interested, and join the for-dummies part ;-)&lt;br /&gt;
&lt;br /&gt;
*[[Liliana Salvador]]: I am in!&lt;br /&gt;
&lt;br /&gt;
*[[Varsha Kulkarni]]: I&#039;d like to come!&lt;br /&gt;
&lt;br /&gt;
== [[Mathematical modeling in ecology ]] ==&lt;br /&gt;
If we want to do this before the talks next week, Monday evening? &lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] whoah, I wish i had an overview on the whole field... &lt;br /&gt;
But a subset of this are food webs: recommended readings for the next week&#039;s talks of Jennifer Dunne &amp;amp; Neo Martinez are &lt;br /&gt;
Berlow et al. 2009 Simple predictions of interaction strengths in complex food webs&lt;br /&gt;
and &lt;br /&gt;
Dunne et al. 2008 Compilation and network analysis of Cambrian food webs &lt;br /&gt;
(i can send both if you&#039;re interested). This is the latest and probably best of their research agenda, so we could discuss them, and Sasha &amp;amp; me could talk about different approaches/remaining big unsolved questions of community ecology. It would be cool if it&#039;d happen before the talks (this would enable better questions and discussion during the talks), but looking at our schedule, there&#039;s not much chance for this... &lt;br /&gt;
 &lt;br /&gt;
About other ecol.modeling:&lt;br /&gt;
I guess I could give a general introduction to it, which will probably be biased towards the stuff i actually know something about- ODE-based modeling, networks and probably adaptive dynamics. For the sake of complexity, I can tell you on what fields they use other types of models (e.g. individual-based or spatial distribution models), but i don&#039;t know too much about the details of these.&lt;br /&gt;
&lt;br /&gt;
*[[Caroline Farrior]]  I agree an overview of the whole field is difficult.  I would be willing to take part in this discussion and talk about the kinds of work I do with forest models and models I have seen done in many other areas of Ecology.  There a lot of different kinds of models in Ecology which all have their own goals and utilities in combination with data and ideas.  I would be very happy to listen to and perhaps contribute to such a discussion.&lt;br /&gt;
&lt;br /&gt;
*[[Roozbeh Daneshvar]]  I&#039;d like to join. I do not have much background in this area and any amount of review before the relevant classes is highly appreciated.&lt;br /&gt;
&lt;br /&gt;
*[[Marek Kwiatkowski]] I would be interested in learning about this too.&lt;br /&gt;
&lt;br /&gt;
*[[Andrew Noble]]  This all sounds great.  I&#039;d be happy to lead a brief overview of stochastic process models in community ecology (focusing on Hubbell&#039;s neutral theory of biodiversity).  How about next Wednesday at 7pm?  I&#039;d like to attend the MaxEnt workshop Monday evening, and there are conflicts with Hubler&#039;s nonlinear workshops on Tuesday and Thursday.&lt;br /&gt;
&lt;br /&gt;
*[[Jacopo Tagliabue]]  I&#039;d like to join, since it sounds very interesting. I do not have much background, so some introductory remarks will be appreciated!&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] I&#039;m in&lt;br /&gt;
&lt;br /&gt;
*[[Steven Lade]] Yep sounds great -- for scheduling just be aware there&#039;s also the &#039;music on the hill&#039; Wed 6-8pm.&lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] Yeah, you have to choose between music and science here, we have such a tight schedule :( So, the final plan looks like: i will give an outline of math. modeling in ecology in 10 minutes, and after that every ecologist who wants and is there (including me) talks about his-her &#039;specialty&#039; in cca 5 minutes. Speakers please: forget the details, concentrate on what we already know on your field-what we learned from using your method, and where are the major questions. thx for every contribution!&lt;br /&gt;
&lt;br /&gt;
== [[(Evolutionary) Game Theory]] ==&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]: Since there are a couple requests for this I&#039;d be happy to organize a chat about game theory and evolutionary game theory.  I can give an intro to some basic ideas in evolutionary game theory, namely the hawk-dove game, prisoner&#039;s dilemma, pure vs mixed vs conditional strategies, Nash equilibrium, evolutionarily stable strategies, and neighbor-invading and convergent stable strategies.  Presumably there are people out there with more expertise in general game theory, who could join in...&lt;br /&gt;
&lt;br /&gt;
In terms of a time, since the evenings look pretty crowded, how about at 4:45 after the last lectures, either Tues or Thurs this week, or some day next week?&lt;br /&gt;
&lt;br /&gt;
Post if you&#039;re interested.&lt;br /&gt;
&lt;br /&gt;
I&#039;m interested. [[Marek Kwiatkowski]]&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]] I&#039;m interested 2&lt;br /&gt;
&lt;br /&gt;
Thanks! Interested as well. [[Mauricio Gonzalez-Forero]]&lt;br /&gt;
&lt;br /&gt;
[[Mareen Hofmann]] I&#039;d like to join as well! Regarding a time: I&#039;d suggest Thursday after the last lecture.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]: Thank u guys. I&#039;m in!&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]: Great, let&#039;s do this Thursday after the last lecture (4:45ish).  I&#039;m just planning to chat about the concepts I listed above, so anyone with more knowledge in game theory is more than welcome to join in.&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka]]: I&#039;m interested too.&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
**I second this request, particularly nonlinear TS and/or using TISEAN (Matt McMahon)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
** [[Lucas Lacasa]] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
** [[Steven Lade]] I&#039;d like to hear about this too; can you schedule a tutorial?&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann, Roozbeh Daneshvar, [[Massimo Mastrangeli]])&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
*If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
*Fitting high dimensional data with functions--is there such thing as 4D maximum likelihood estimation (MLE)?  Also how to tell if two &#039;blobs&#039; of high dimensional data are statistically the same or different.[[Corinne Teeter]]&lt;br /&gt;
** The MLE is defined for any parameter vector, i.e. any number of dimensions. Finding it is a different story, and can be hard if the objective is not convex. The fully non-parametric (&amp;quot;assumption-free&amp;quot;) way to do this is a two-sample test. For 1D data, you could use something like the [http://en.wikipedia.org/wiki/Kolmogorov-Smirnov_test#Two-sample_Kolmogorov.E2.80.93Smirnov_test Kolmogorov-Smirnov test] or [http://en.wikipedia.org/wiki/Cram%C3%A9r%E2%80%93von-Mises_criterion#Cram.C3.A9r-von-Mises_test_.28two_samples.29 Cramer-von Mises criterion]. Essentially you are stuffing the points from sample 2 into bins defined by the points from sample 1 (or vice-versa): the null hypothesis is that the bins are filled uniformly. You want to find a generalization of this into higher dimensions. I imagine that textbooks on spatial statistics would have this information.&lt;br /&gt;
UPDATE: I think you could use Voronoi cells as your bins, and this works in any number of dimensions! -[[Gustavo Lacerda]]&lt;br /&gt;
&lt;br /&gt;
*Bayesian inference. Maximum likelihood estimation. (requested by Steve Lade)&lt;br /&gt;
** I&#039;d be happy to give a &amp;quot;casual chat&amp;quot; on this. [[Gustavo Lacerda]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d like to learn about normal modes and the Lagrangian and/or Hamiltonian formulation of classical mechanics.  -[[Gustavo Lacerda]] **I would be glad to discuss this with you.  You might also be interested in how these deterministic systems give rise to randomness [[Nathan Hodas]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d like to learn some beyond-the-basic econometrics and data analysis, possibly focusing on how to build models in social sciences. Anyone?  -[[Jacopo Tagliabue]] and [[Roozbeh Daneshvar]]&lt;br /&gt;
&lt;br /&gt;
* I&#039;d love to get introduced to game theory ([[Massimo Mastrangeli]] and [[Roozbeh Daneshvar]])&lt;br /&gt;
&lt;br /&gt;
* Anyone can tell me about graph grammars? ([[Massimo Mastrangeli]])&lt;br /&gt;
&lt;br /&gt;
* Could someone give a quick overview of percolation theory? [[Allison Shaw]]&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Projects_%26_Working_Groups&amp;diff=30941</id>
		<title>CSSS 2009 Santa Fe-Projects &amp; Working Groups</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Projects_%26_Working_Groups&amp;diff=30941"/>
		<updated>2009-06-12T03:01:04Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
==Brainstorming==&lt;br /&gt;
* &#039;&#039;&#039;Disease ecology of media hype.&#039;&#039;&#039; How much and event gets covered in the news often appears to depends on how much it is already covered in the news. Often this distorts reality. For example, the number of searches for &amp;quot;swine flu&amp;quot; (a proxy for media hype), do not reflect  the patterns of disease spread over the same period. &lt;br /&gt;
[[Image:Flu_trends.png|thumb|Google searches for &amp;quot;swine flu&amp;quot;|left]] &lt;br /&gt;
[[Image:Flu_cases.png |thumb|Actual number of swine flu cases over the same period|left]]&lt;br /&gt;
While the number of flu cases increased, the searches died off, as interest in the topic waned. It would be interesting to follow the origin, spread and extinction of media hype, maybe applying models commonly used to study the spread of disease. [[Alexander Mikheyev]]&amp;lt;br style=&amp;quot;clear:both&amp;quot; /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Alhaji Cherif]]&amp;lt;br style=&amp;quot;clear:both&amp;quot;/&amp;gt; you could look at the dynamics from agent-based (ABM) perspective. There is a recent paper by Epstein and colleague that focuses on the impact of fear on disease from agent-based perspective, but does not capture this dynamics.  However, my collaborator and I are currently writing a paper on the same problem you just outline from mathematical epidemiological perspective. Our results show some interesting dynamics.  I think its extension in ABM might provide richer dynamics.&lt;br /&gt;
&lt;br /&gt;
*[[Image:Phoenix.jpg|thumb|Change in Phoenix home prices. Source: NYT|left]]&lt;br /&gt;
&#039;&#039;&#039;Housing prices.&#039;&#039;&#039; The New York Times has a set of [http://www.nytimes.com/interactive/2007/08/25/business/20070826_HOUSING_GRAPHIC.html?scp=3&amp;amp;sq=home%20prices%20graphic&amp;amp;st=cse dramatic graphs] showing the rise and fall of home prices in select cities. Again these graphs reminded me a bit of those produced by [http://www.math.duke.edu/education/ccp/materials/postcalc/sir/sir2.html susceptible-infected-recovered] models of disease spread. Maybe there is something to it? Or maybe this phenomenon is already well understood by economists? [[Alexander Mikheyev]]&amp;lt;br style=&amp;quot;clear:both&amp;quot; /&amp;gt;&lt;br /&gt;
*&#039;&#039;&#039;Movie Turnouts&#039;&#039;&#039; Which would be the more popular movie -- a combination of Steven Spielberg, Eddie Murphy and Gwyneth Paltrow, or Woody Allen, Dwayne &#039;the rock&#039; Johnson, and Tom Cruise?  Using the adaptation and turnout models presented by Nathan Collins, could we construct a prediction for gross movie receipts or even movie ratings?   [[Nathan Hodas]]&lt;br /&gt;
&lt;br /&gt;
*&#039;&#039;&#039;Climate network model.&#039;&#039;&#039; &#039;&#039;Requires someone with climatology knowledge.&#039;&#039; Lenton et al. recently published a [http://www.pnas.org/content/105/6/1786 paper] listing &#039;policy-relevant&#039; &#039;tipping elements&#039; in the Earth&#039;s climate system and the temperature tipping points required to initiate them. (Basically, the tipping elements are components of the climate system where a bifurcation leading to a different stable state can be induced. The tipping point is the temperature at the bifurcation.) Surely, many of these tipping elements would have feedback effects on other tipping elements or the climate system as a whole. I would like to make a network model of these tipping elements and look at the tipping (or other) dynamics of the whole system. But Lenton et al. don&#039;t discuss these feedbacks much in their model, so we need some expert knowledge. [[Steven Lade]]&lt;br /&gt;
&lt;br /&gt;
*&#039;&#039;&#039;Synchronised magma oscillations&#039;&#039;&#039; &#039;&#039;Requires someone with geological knowledge&#039;&#039; In a recent [http://www.springerlink.com/content/n76781712g2q3578/?p=ec0c1ffe588f473a8dbe9637a3822ebf&amp;amp;pi=2 paper], which was also [http://www.sciencedirect.com.virtual.anu.edu.au/science?_ob=ArticleURL&amp;amp;_udi=B83WY-4WBRC9H-G&amp;amp;_user=554534&amp;amp;_coverDate=05%2F20%2F2009&amp;amp;_alid=931681330&amp;amp;_rdoc=1&amp;amp;_fmt=high&amp;amp;_orig=search&amp;amp;_cdi=33799&amp;amp;_sort=d&amp;amp;_docanchor=&amp;amp;view=c&amp;amp;_ct=1&amp;amp;_acct=C000028338&amp;amp;_version=1&amp;amp;_urlVersion=0&amp;amp;_userid=554534&amp;amp;md5=5dc46c822607723e06f9b72fb16d1463 reported] by New Scientist, Mjelde and Faleide report on seismological measurements that allowed them to infer past rates of magma flow in the plume generally though to rise beneath Iceland. When the plume is strong it thickens the Earth&#039;s crust at this point. They found the crust thickened approximately every 15 million years, and inferred that the magma plume must also have pulsed with this period. These pulsations have also been observed in the crust under Hawaii, with almost exactly the same period! Mjelde and Faleide hypothesise that there must be some giant heating oscillation in the Earth&#039;s core which drives these two oscillations at very different parts of the Earth. But other geologists are skeptical because of the huge energy required and lack of other evidence of such oscillations. But all this reminds me of the synchronisation phenomenon, where coupled oscillators, even if only weakly coupled, tend to synchronise. So the oscillations under Hawaii and Iceland may be generated independently, but have some weak coupling that has led them to synchronise. We can make coupled oscillator models, that&#039;s easy, but someone to provide more context on possible forms of coupling and their parameterisation is more what we need. They only observe about three periods of this oscillation and the data is quite imprecise so we can&#039;t do much direct data analysis, unfortunately. [[Steven Lade]]&lt;br /&gt;
&lt;br /&gt;
[[Mahyar Malekpour]]&lt;br /&gt;
* &amp;quot;&amp;quot;Implementing Synchronization using NetLogo&amp;quot;&amp;quot;&lt;br /&gt;
Since I just learned about NetLogo, I look forward to the tutorial sessions and would like to implement a synchronization scheme of a group of entities.  If I find out how the fireflies synchronize themselves, then that would be an option.  Of course, I&#039;ll be surprised if this has not been done before in NetLogo.  I&#039;ll welcome any help and suggestions.&lt;br /&gt;
&lt;br /&gt;
*&#039;&#039;&#039;The Global Spread of Cricket&#039;&#039;&#039;: No I&#039;m not actually intending to study this particular topic. But there is one interesting article published in 2005 (Kaufman and Patterson, American Sociological Review) that examined why cricket continues to be popular in many British-influenced societies while it is not in the U.S. and Canada. This is interesting given the fact that cricket was very popular in the two countries and that the first official international cricket match took place between the two countries in the mid-19th century. So, not only how cultures, ideas, technologies, etc. diffuse across nations, populations, and so on, but also mechanisms that influence the retention after the initial adoption merit serious attention I think. One possible topic include is modern contraceptive use in developing countries. I guess modeling such mechanisms would require taking into account the models presented by Nathan Collins and Peter Dodds, in addition to signed networks (Doreian). One difficulty of modeling this kind of mechanism is that both structural and individual factors should be considered [[Hirotoshi Yoshioka]].&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30829</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30829"/>
		<updated>2009-06-11T14:36:20Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Statistical physics: applications to complex systems */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
== Information theory leading on to Maximum Entropy (and maybe maximum entropy production) ==&lt;br /&gt;
[[Steven Lade]]: Well, nobody responded to my request so perhaps I&#039;ll do it myself :) I learnt a little at another summer school, so maybe I&#039;m the best qualified, I was just hoping I wasn&#039;t. :)&lt;br /&gt;
&lt;br /&gt;
Maximum entropy comes out of information theory (which I&#039;m not expert in, so if there&#039;s someone knowledgeable to help me there, that would be great). It states simply that the most likely state of a system is the one which maximises its (information-theoretic) entropy. The entropy of statistical mechanics comes naturally from it: indeed, stat mech can be viewed as a subset of information theory from this perspective. But you can apply it to any sort of system, not just physics. For instance, you can easily obtain scaling laws in ecological systems. It&#039;s the closest thing to a &#039;theory of complex systems&#039; that I&#039;ve seen!&lt;br /&gt;
&lt;br /&gt;
Tentative time: 7PM, Monday June 15. Add your name if interested.&lt;br /&gt;
&lt;br /&gt;
* I am interested and will happily wear the skeptic hat: essentially if the entropy is sensitive to your parametrization, it loses much of its meaning. I think this is why some people (such as Amari) like to do &amp;quot;coordinate-free statistics&amp;quot;. -Gustavo Lacerda&lt;br /&gt;
&lt;br /&gt;
* I&#039;m no expert, but I do have information theory basics under my belt... and more importantly,  I happen to have some introductory info. theo. latex slides for a talk I recently gave.  So I can offer help with the background, and then sit back &amp;amp; listen to the higher level, post-Shannon applications :) -[[Rosemary Braun]]&lt;br /&gt;
** On edit: I just noticed Lucas &amp;amp; Roozbeh requested an info theo tutorial -- shall we just roll it all together? -[[Rosemary Braun]]&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] Great, I&#039;m in. Steve, with the Max-ent stuff you mean Jaynes? I&#039;ve seen Jaynes formalism two or three times but never saw the difference with a merely Lagrange multiplier optimization, so great to hear about that. Rosemary, I would also be glad to learn some information theory stuff. I know the ultra-basics (Shannon entropy, mutual information, and not much more...).&lt;br /&gt;
&lt;br /&gt;
[[Angela Onslow]]: I&#039;d like to come along to this&lt;br /&gt;
&lt;br /&gt;
[[Roozbeh Daneshvar]]: FYI, We have ABM tutorial on Monday, June 15th starting at 04:30 PM. I assume that it is finished by 07:00 PM.&lt;br /&gt;
&lt;br /&gt;
[[Kate Behrman]]: I also do not claim to be an expert, but have gone over a lot of the theory that is commonly used in biology. I would like to know what physicists think. Count me in!&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]: Rosemary, would be great if you could start with information theory. Lucas, yes I do mean Jaynes. Lagrange multiplier optimisation is really all that happens, so maybe it is all the same -- I confess I don&#039;t know much stat mech either! This session is going to be very much everyone contributing I think. And sounds like you may know more than me, Kate.&lt;br /&gt;
&lt;br /&gt;
== MATLAB / Mathematica ==&lt;br /&gt;
[[Steven Lade]]: Hiro, I will happily give a tutorial on the basics of these languages (but only the basics, I don&#039;t use any of the fancy bits). Anyone here know if the labs here run MATLAB/Mathematica?&lt;br /&gt;
&lt;br /&gt;
If there is anyone else interested (leave your name) I&#039;ll arrange a time, otherwise I&#039;ll talk directly with you Hiro.&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]]:  I would also like a tutorial on MATLAB.  I know some things about it, but never really learned the basics so it takes me a long time to do things.  The computer labs should be equipped with MATLAB.  I also have a fairly updated version on my laptop.&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]]I&#039;m also interested! Also know some basics but I usually program in Fortran so I&#039;d love to learn it.&lt;br /&gt;
&lt;br /&gt;
Steven, many thanks! I think that the computers in the lab have MATLAB. If not, we can access it through my school&#039;s server as long as the internet connection is stable. [[Hirotoshi Yoshioka]]/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
[[Brian Hollar]] I&#039;m also very interested!  I&#039;ve never used these languages, but have some basic knowledge of Java, NetLogo, and FORTRAN.  I&#039;d appreciate the help and would love to learn.&lt;br /&gt;
&lt;br /&gt;
[[Milena Tsvetkova]] Count me in! Steve, what is a good time for you?&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]: Hi ppl. Could I join in? I know MATLAB and I would like to further polish my MATLAB skills. Meanwhile I want to learn Mathematica.&lt;br /&gt;
&lt;br /&gt;
Thanks for coordinating the tutorial and for &#039;setting up&#039; the facilities, Steve and Lucas.&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]:Hello,I&#039;m here! Thank you guys for this tutorial.I&#039;m a kid in MATLAB and very courious about it.I know M is a giant in Mathematics,Statistic Analysis,Images and Genetic Algorithm and really want to learn more about that.By the way, I have the installation of Matlab 7.0 and I&#039;ll take it in my flash drive.If you have updated version, that would be better.&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]: Too late for this week I think, and next week is pretty full, so let&#039;s aim for 7PM Monday June 22.&lt;br /&gt;
&lt;br /&gt;
== Statistical physics: applications to complex systems ==&lt;br /&gt;
[[Lucas Lacasa]]:Statistical physics is a rather huge field, so I&#039;m thinking on building a tutorial that focus on some specific topics related to complexity science in a chat-like level, namely:&lt;br /&gt;
&lt;br /&gt;
- Fundamentals of statistical mechanics: ensembles, partition function and associated thermodynamic quantities (free energy, entropy) and some other basic stuff.&lt;br /&gt;
&lt;br /&gt;
- Critical phenomena: Phase transitions in physical, social, and algorithmic systems. Self-organized criticality as the counterpart of a critical phase transition. Relation between phase transitions and local bifurcations of dynamical systems.&lt;br /&gt;
&lt;br /&gt;
- Monte Carlo simulations, ergodic theorem &lt;br /&gt;
&lt;br /&gt;
- Specific example gathering all of the above: Ising model&lt;br /&gt;
&lt;br /&gt;
- Other related topics that you may like to listen to&lt;br /&gt;
&lt;br /&gt;
Maybe we could schedule it for next week, something like next wednesday (17) at 7pm? (provided that no PRIORITY things such as basketball or soccer games are scheduled). If anyone else is interested please leave your name. Depending on the &#039;audience&#039; we can fix one place or another...&lt;br /&gt;
&lt;br /&gt;
*[[Steven Lade]] Fantastic, I&#039;m in. But there is the &#039;Music on the Hill&#039; 6-8pm Wednesdays. Is 8pm getting too late for &#039;work&#039;? Or I miss an hour of the music. (Tuesday and thursdays there&#039;s the nonlinear dynamics labs)&lt;br /&gt;
&lt;br /&gt;
*[[Lucas Lacasa]] You&#039;re right. What about friday 19 after lunch?&lt;br /&gt;
&lt;br /&gt;
*[[Roozbeh Daneshvar]] I&#039;d like to join this one.&lt;br /&gt;
&lt;br /&gt;
*[[Corinne Teeter]] I&#039;d also like to come.&lt;br /&gt;
&lt;br /&gt;
*[[Barbara Bauer]] I&#039;m interested too.&lt;br /&gt;
&lt;br /&gt;
*[[Hirotoshi Yoshioka]]: I&#039;d like to come.&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
** [[Lucas Lacasa]] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
** [[Steven Lade]] I&#039;d like to hear about this too; can you schedule a tutorial?&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
*If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
*Fitting high dimensional data with functions--is there such thing as 4D maximum likelihood estimation (MLE)?  Also how to tell if two &#039;blobs&#039; of high dimensional data are statistically the same or different.[[Corinne Teeter]]&lt;br /&gt;
*Bayesian inference. Maximum likelihood estimation. (requested by Steve Lade)&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Alfred_Hubler%27s_Nonlinear_Dynamics_Lab&amp;diff=30785</id>
		<title>Alfred Hubler&#039;s Nonlinear Dynamics Lab</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Alfred_Hubler%27s_Nonlinear_Dynamics_Lab&amp;diff=30785"/>
		<updated>2009-06-11T03:29:03Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Tuesday June 16, 7:00 p.m. */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Alfred will be hosting a lab where students get to play around with a few concepts from nonlinearity and complexity science.&lt;br /&gt;
&lt;br /&gt;
Class size is limited to 12 students.&lt;br /&gt;
&lt;br /&gt;
===Tuesday June 16, 7:00 p.m.===&lt;br /&gt;
1[[Erin Taylor]]&amp;lt;br&amp;gt;&lt;br /&gt;
2[[Roozbeh Daneshvar]]&amp;lt;br&amp;gt;&lt;br /&gt;
3[[Allison Shaw]]&amp;lt;br&amp;gt;&lt;br /&gt;
4[[Matt_McMahon]]&amp;lt;br&amp;gt;&lt;br /&gt;
5[[Nathan Hodas]]&amp;lt;br&amp;gt;&lt;br /&gt;
6[[Steven Lade]]&amp;lt;br&amp;gt;&lt;br /&gt;
7[[Daniel Wuellner]]&amp;lt;br&amp;gt;&lt;br /&gt;
8[[Karen Simpson]]&amp;lt;br&amp;gt;&lt;br /&gt;
9[[Mauricio Gonzalez-Forero]]&amp;lt;br&amp;gt;&lt;br /&gt;
10 [[Margreth Keiler]]&amp;lt;br&amp;gt;&lt;br /&gt;
11[[Chang Yu]]&amp;lt;br&amp;gt;&lt;br /&gt;
12[[Hirotoshi Yoshioka]]&amp;lt;br&amp;gt;&lt;br /&gt;
&lt;br /&gt;
===Wednesday June 17, 8:30 a.m.===&lt;br /&gt;
1&amp;lt;br&amp;gt;&lt;br /&gt;
2&amp;lt;br&amp;gt;&lt;br /&gt;
3&amp;lt;br&amp;gt;&lt;br /&gt;
4&amp;lt;br&amp;gt;&lt;br /&gt;
5&amp;lt;br&amp;gt;&lt;br /&gt;
6&amp;lt;br&amp;gt;&lt;br /&gt;
7&amp;lt;br&amp;gt;&lt;br /&gt;
8&amp;lt;br&amp;gt;&lt;br /&gt;
9&amp;lt;br&amp;gt;&lt;br /&gt;
10&amp;lt;br&amp;gt;&lt;br /&gt;
11&amp;lt;br&amp;gt;&lt;br /&gt;
12&amp;lt;br&amp;gt;&lt;br /&gt;
===Thursday June 18 7:00 p.m.===&lt;br /&gt;
1 Caroline Farrior&amp;lt;br&amp;gt; &lt;br /&gt;
2&amp;lt;br&amp;gt;&lt;br /&gt;
3&amp;lt;br&amp;gt;&lt;br /&gt;
4&amp;lt;br&amp;gt;&lt;br /&gt;
5&amp;lt;br&amp;gt;&lt;br /&gt;
6&amp;lt;br&amp;gt;&lt;br /&gt;
7&amp;lt;br&amp;gt;&lt;br /&gt;
8&amp;lt;br&amp;gt;&lt;br /&gt;
9&amp;lt;br&amp;gt;&lt;br /&gt;
10&amp;lt;br&amp;gt;&lt;br /&gt;
11&amp;lt;br&amp;gt;&lt;br /&gt;
12&amp;lt;br&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Roozbeh Daneshvar]] is absolutely in! (should I sign-up here?)&lt;br /&gt;
&amp;lt;br&amp;gt;-------     [[jp]]  Yep, got you in&lt;br /&gt;
&lt;br /&gt;
[[Erin Taylor]] will be there for Tuesday the 16th&#039;s lab&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]] will be there for lab on the 16th too&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30772</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30772"/>
		<updated>2009-06-11T02:31:10Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* MATLAB / Mathematica */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
== Maximum Entropy (and maybe maximum entropy production) ==&lt;br /&gt;
[[Steven Lade]]: Well, nobody responded to my request so perhaps I&#039;ll do it myself :) I learnt a little at another summer school, so maybe I&#039;m the best qualified, I was just hoping I wasn&#039;t. :)&lt;br /&gt;
&lt;br /&gt;
Maximum entropy comes out of information theory (which I&#039;m not expert in, so if there&#039;s someone knowledgeable to help me there, that would be great). It states simply that the most likely state of a system is the one which maximises its (information-theoretic) entropy. The entropy of statistical mechanics comes naturally from it: indeed, stat mech can be viewed as a subset of information theory from this perspective. But you can apply it to any sort of system, not just physics. For instance, you can easily obtain scaling laws in ecological systems. It&#039;s the closest thing to a &#039;theory of complex systems&#039; that I&#039;ve seen!&lt;br /&gt;
&lt;br /&gt;
Tentative time: 7PM, Monday June 15. Add your name if interested.&lt;br /&gt;
&lt;br /&gt;
* I am interested and will happily wear the skeptic hat: essentially if the entropy is sensitive to your parametrization, it loses much of its meaning. I think this is why some people (such as Amari) like to do &amp;quot;coordinate-free statistics&amp;quot;. -Gustavo Lacerda&lt;br /&gt;
&lt;br /&gt;
* I&#039;m no expert, but I do have information theory basics under my belt... and more importantly,  I happen to have some introductory info. theo. latex slides for a talk I recently gave.  So I can offer help with the background, and then sit back &amp;amp; listen to the higher level, post-Shannon applications :) -[[Rosemary Braun]]&lt;br /&gt;
** On edit: I just noticed Lucas &amp;amp; Roozbeh requested an info theo tutorial -- shall we just roll it all together? -[[Rosemary Braun]]&lt;br /&gt;
&lt;br /&gt;
== MATLAB / Mathematica ==&lt;br /&gt;
[[Steven Lade]]: Hiro, I will happily give a tutorial on the basics of these languages (but only the basics, I don&#039;t use any of the fancy bits). Anyone here know if the labs here run MATLAB/Mathematica?&lt;br /&gt;
&lt;br /&gt;
If there is anyone else interested (leave your name) I&#039;ll arrange a time, otherwise I&#039;ll talk directly with you Hiro.&lt;br /&gt;
&lt;br /&gt;
[[Karen Simpson]]:  I would also like a tutorial on MATLAB.  I know some things about it, but never really learned the basics so it takes me a long time to do things.  The computer labs should be equipped with MATLAB.  I also have a fairly updated version on my laptop.&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]]I&#039;m also interested! Also know some basics but I usually program in Fortran so I&#039;d love to learn it.&lt;br /&gt;
&lt;br /&gt;
Steven, many thanks! I think that the computers in the lab have MATLAB. If not, we can access it through my school&#039;s server as long as the internet connection is stable. [[Hirotoshi Yoshioka]]/lakiaypayaska&lt;br /&gt;
&lt;br /&gt;
== Statistical physics: applications to complex systems ==&lt;br /&gt;
[[Lucas Lacasa]]:Statistical physics is a rather huge field, so I&#039;m thinking on building a tutorial that focus on some specific topics related to complexity science in a chat-like level, namely:&lt;br /&gt;
&lt;br /&gt;
- Fundamentals of statistical mechanics: ensembles, partition function and associated thermodynamic quantities (free energy, entropy) and some other basic stuff.&lt;br /&gt;
&lt;br /&gt;
- Critical phenomena: Phase transitions in physical, social, and algorithmic systems. Self-organized criticality as the counterpart of a critical phase transition. Relation between phase transitions and local bifurcations of dynamical systems.&lt;br /&gt;
&lt;br /&gt;
- Monte Carlo simulations, ergodic theorem &lt;br /&gt;
&lt;br /&gt;
- Specific example gathering all of the above: Ising model&lt;br /&gt;
&lt;br /&gt;
- Other related topics that you may like to listen to&lt;br /&gt;
&lt;br /&gt;
Maybe we could schedule it for next week, something like next wednesday (17) at 7pm? (provided that no PRIORITY things such as basketball or soccer games are scheduled). If anyone else is interested please leave your name. Depending on the &#039;audience&#039; we can fix one place or another...&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
** [[Lucas Lacasa]] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
** [[Steven Lade]] I&#039;d like to hear about this too; can you schedule a tutorial?&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
*If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30693</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30693"/>
		<updated>2009-06-10T11:27:54Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: /* Tutorial requests! */&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
[Lucas Lacasa] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
*If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30682</id>
		<title>CSSS 2009 Santa Fe-Tutorials</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Tutorials&amp;diff=30682"/>
		<updated>2009-06-10T03:01:16Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
Feel free to organize your own tutorials.&amp;lt;br&amp;gt;&lt;br /&gt;
Post tutorial schedules here.&lt;br /&gt;
&lt;br /&gt;
== Tutorial requests! ==&lt;br /&gt;
Either a formal &#039;lecture&#039; or a casual &#039;chat&#039; is fine!&lt;br /&gt;
* Time series analysis (requested by Steve Lade)&lt;br /&gt;
* Maximum entropy / Maximum entropy production (requested by Steve Lade)&lt;br /&gt;
* Mathematical modelling in ecology (requested by Steve Lade)&lt;br /&gt;
* Some physics stuff: statistical mechanics; mean field theory; self-organized criticality and phase transitions; Ising model and the like (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
[Lucas Lacasa] I can talk you about phase transitions, Ising model, SOC and general stat phys...&lt;br /&gt;
* Evolutionary game theory (requested by Mareen Hofmann and Roozbeh Daneshvar)&lt;br /&gt;
* Ergodic theory (requested by Roozbeh Daneshvar)&lt;br /&gt;
* Information theory (requested by Roozbeh Daneshvar and Lucas Lacasa)&lt;br /&gt;
* Spectral graph theory (requested by Lucas Lacasa)&lt;br /&gt;
* Spin glass theory: Replica method (requested by Lucas Lacasa)&lt;br /&gt;
&lt;br /&gt;
If somebody can give a tutorial on Matlab and/or Mathematica, that would be nice. I&#039;m also interested in the difference between the two programs (e.g., what each program is good at). Thanks in advance! Hiro/lakiaypayaska&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=30252</id>
		<title>Hirotoshi Yoshioka</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=30252"/>
		<updated>2009-05-30T18:24:06Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;My name is Hiro Yoshioka and I’m originally from Japan. I’m a Ph.D. candidate in sociology and demography and also, Mellon Fellow in Latin American Sociology at the University of Texas at Austin. My research interests include international migration, infant and child mortality, and ethnic relations in Central America.&lt;br /&gt;
&lt;br /&gt;
At the summer school, I hope that I can work on a project that will be a core part of my Ph.D. dissertation. I am interested in learning how people’s images of particular ethnic groups are constructed and re-constructed.Having done fieldwork in Bilwi, a city located in the Atlantic Autonomous Region of Nicaragua (RAAN) and currently living in a Guatemalan indigenous K’ichee’ community, I have some ideas of how ethnic images are constructed (e.g., using such social concepts as Charles Tilly’s social boundary, Mark Granovetter’s threshold and weak ties, and Fararo and Kosaka’s social stratification images), but these ideas are still premature. I hope that at the summer school, I can learn a lot more complex adaptive systems and ways to implement my ideas in computational simulations to better understand the concept of ethnicity.&lt;br /&gt;
&lt;br /&gt;
When I’m not working, I like reading, swimming and running. I’m hoping that I will be able to enjoy the beautiful city of Santa Fe during morning runs. My email address is: oxlajuj.payaska-at-gmail.com. I look forward to meeting you all in June.&lt;br /&gt;
&lt;br /&gt;
Update---&lt;br /&gt;
Answers to Dan Rockmore&#039;s questions:&lt;br /&gt;
&lt;br /&gt;
1. I&#039;m interested in two of demography&#039;s main areas: migration and mortality. In addition, my interests include such issues as urbanization, ethnic inequalities, and quantitative methods (in sociology and demography), especially, Bayesian statistics and non-linear multivariate decomposition (which Dan Powers at UT Austin and I are writing programs for Stata).&lt;br /&gt;
&lt;br /&gt;
2. As a grad student in sociology/demography, I am familiar with theories from these two fields. And I am familiar with applied statistical modeling, and some statistical packages/languages such as R and Stata.&lt;br /&gt;
&lt;br /&gt;
3. Besides learning about the complex adaptive systems approach, I would like to know what other people are doing using this approach, especially works done by social science folks.&lt;br /&gt;
&lt;br /&gt;
4. As mentioned above, my hope is to work on models of identity construction. But I&#039;m not sure if this is a feasible school project.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=30251</id>
		<title>Hirotoshi Yoshioka</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=30251"/>
		<updated>2009-05-30T18:23:42Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;My name is Hiro Yoshioka and I’m originally from Japan. I’m a Ph.D. candidate in sociology and demography and also, Mellon Fellow in Latin American Sociology at the University of Texas at Austin. My research interests include international migration, infant and child mortality, and ethnic relations in Central America.&lt;br /&gt;
&lt;br /&gt;
At the summer school, I hope that I can work on a project that will be a core part of my Ph.D. dissertation. I am interested in learning how people’s images of particular ethnic groups are constructed and re-constructed.Having done fieldwork in Bilwi, a city located in the Atlantic Autonomous Region of Nicaragua (RAAN) and currently living in a Guatemalan indigenous K’ichee’ community, I have some ideas of how ethnic images are constructed (e.g., using such social concepts as Charles Tilly’s social boundary, Mark Granovetter’s threshold and weak ties, and Fararo and Kosaka’s social stratification images), but these ideas are still premature. I hope that at the summer school, I can learn a lot more complex adaptive systems and ways to implement my ideas in computational simulations to better understand the concept of ethnicity.&lt;br /&gt;
&lt;br /&gt;
When I’m not working, I like reading, swimming and running. I’m hoping that I will be able to enjoy the beautiful city of Santa Fe during morning runs. My email address is: oxlajuj.payaska-at-gmail.com. I look forward to meeting you all in June.&lt;br /&gt;
&lt;br /&gt;
Update---&lt;br /&gt;
Answers to Dan Rockmore&#039;s questions:&lt;br /&gt;
1. I&#039;m interested in two of demography&#039;s main areas: migration and mortality. In addition, my interests include such issues as urbanization, ethnic inequalities, and quantitative methods (in sociology and demography), especially, Bayesian statistics and non-linear multivariate decomposition (which Dan Powers at UT Austin and I are writing programs for Stata).&lt;br /&gt;
&lt;br /&gt;
2. As a grad student in sociology/demography, I am familiar with theories from these two fields. And I am familiar with applied statistical modeling, and some statistical packages/languages such as R and Stata.&lt;br /&gt;
&lt;br /&gt;
3. Besides learning about the complex adaptive systems approach, I would like to know what other people are doing using this approach, especially works done by social science folks.&lt;br /&gt;
&lt;br /&gt;
4. As mentioned above, my hope is to work on models of identity construction. But I&#039;m not sure if this is a feasible school project.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=29760</id>
		<title>Hirotoshi Yoshioka</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=29760"/>
		<updated>2009-04-15T17:23:00Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;My name is Hiro Yoshioka and I’m originally from Japan. I’m a Ph.D. candidate in sociology and demography and also, Mellon Fellow in Latin American Sociology at the University of Texas at Austin. My research interests include international migration, infant and child mortality, and ethnic relations in Central America.&lt;br /&gt;
&lt;br /&gt;
At the summer school, I hope that I can work on a project that will be a core part of my Ph.D. dissertation. I am interested in learning how people’s images of particular ethnic groups are constructed and re-constructed. As a sociologist, I argue that the concept and image of ethnicity is social constructed, as many social scientists including Max Weber have argued. And it is my belief that it is very difficult, if not impossible, to express processes of ethnic image construction using neither linear nor non-linear functions. &lt;br /&gt;
&lt;br /&gt;
Having done fieldwork in Bilwi, a city located in the Atlantic Coast of Nicaragua (RAAN) and currently living in a Guatemalan indigenous K’ichee’ community, I have some ideas of how ethnic images are constructed (e.g., using such social concepts as Charles Tilly’s social boundary, Mark Granovetter’s threshold and weak ties, and Fararo and Kosaka’s social stratification images), but these are still premature. I hope that at the summer school, I can learn a lot more complex adaptive systems and ways to implement my ideas in computational simulations to better understand the concept of ethnicity.&lt;br /&gt;
&lt;br /&gt;
When I’m not working, I like reading, swimming and running. I’m hoping that I will be able to enjoy the beautiful city of Santa Fe during morning runs. My email address is: oxlajuj.payaska-at-gmail.com. I look forward to meeting you all in June.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=29725</id>
		<title>Hirotoshi Yoshioka</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=Hirotoshi_Yoshioka&amp;diff=29725"/>
		<updated>2009-04-11T21:45:17Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: New page: My name is Hiro Yoshioka and I’m originally from Japan. I’m a Ph.D. candidate in sociology and demography and also, Mellon Fellow in Latin American Sociology at the University of Texas...&lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;My name is Hiro Yoshioka and I’m originally from Japan. I’m a Ph.D. candidate in sociology and demography and also, Mellon Fellow in Latin American Sociology at the University of Texas at Austin. My research interests include international migration, infant and child mortality, and ethnic relations in Central America.&lt;br /&gt;
&lt;br /&gt;
At the summer school, I hope that I can work on a project that will be a core part of my Ph.D. dissertation. I am interested in learning how people’s images of particular ethnic groups are constructed and re-constructed. As a sociologist, I argue that the concept and image of ethnicity is social constructed, as many social scientists including Max Weber have argued. And it is my belief that it is very difficult, if not impossible, to express processes of ethnic image construction using neither linear nor non-linear functions. &lt;br /&gt;
&lt;br /&gt;
Having done fieldwork in Bilwi, a city located in the Atlantic Coast of Nicaragua (RAAN) and currently living in a Guatemalan indigenous K’ichee’ community, I have some ideas of how ethnic images are constructed (e.g., using such social concepts as Charles Tilly’s social boundary, Mark Granovetter’s threshold and weak ties, and Fararo and Kosaka’s social stratification images), but these are still premature. I hope that at the summer school, I can learn a lot more complex adaptive systems and ways to implement my ideas in computational simulations to better understand the concept of ethnicity.&lt;br /&gt;
&lt;br /&gt;
When I’m not working, I like reading, swimming and running. I’m hoping that I will be able to enjoy the beautiful city of Santa Fe during morning runs. I look forward to meeting you all in June.&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
	<entry>
		<id>https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Participants&amp;diff=29724</id>
		<title>CSSS 2009 Santa Fe-Participants</title>
		<link rel="alternate" type="text/html" href="https://wiki.santafe.edu/index.php?title=CSSS_2009_Santa_Fe-Participants&amp;diff=29724"/>
		<updated>2009-04-11T21:41:37Z</updated>

		<summary type="html">&lt;p&gt;Lakiaypayaska: &lt;/p&gt;
&lt;hr /&gt;
&lt;div&gt;{{CSSS 2009 Santa Fe}}&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
[[Akwum Onwunta]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Alhaji Cherif]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Allison Shaw]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Almut Brunner]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Andrew Berdahl]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Andrew Noble]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Angela Onslow]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Amer Schreim]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Barbara Bauer]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Brian Hollar]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Caroline Farrior]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Casey Helgeson]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Chaitanya Gokhale]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Chang Yu]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Corinne Teeter]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Daniel Wuellner]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Damian Winters]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[David Jones]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Elliot Martin]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Eric Kasper]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Erin Taylor]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Ganna Rozhnova]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Gustavo Lacerda]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Hirotoshi Yoshioka]]&amp;lt;br /&amp;gt;&lt;br /&gt;
University of Texas at Austin&lt;br /&gt;
&lt;br /&gt;
[[Jacopo Tagliabue]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Jennifer Terpstra]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Jeremy Barofsky]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Joslyn Barnhart]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Kathrine Behrman]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Lara Danilova-Burdess]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Liliana Salvador]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Lucas Lacasa]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Mareen Hoffman]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Marek Kwiatkowski]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Margreth Keiler]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Massimo Mastrangeli]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Mauricio Gonzalez-Forero]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Micah Hawkins]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Michael Schultz]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Milan Bradonjic]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Milena Tsvetkova]]&amp;lt;br /&amp;gt;&lt;br /&gt;
Utrecht University&lt;br /&gt;
&lt;br /&gt;
[[Murad Mithani]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Nathan Hodas]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Philips Akinwole]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Randy Haas]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Rhonda Hoenigman]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Richard Watson]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Rosemary Braun]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Sean Brocklebank]]&amp;lt;br /&amp;gt;&lt;br /&gt;
University of Edinburgh&lt;br /&gt;
&lt;br /&gt;
[[Steven Lade]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Trevor Johnston]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Varsha Kulkarni]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Wei Ni]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Wendy Ham]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Zhu Guimei]]&amp;lt;br /&amp;gt;&lt;/div&gt;</summary>
		<author><name>Lakiaypayaska</name></author>
	</entry>
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