2009-10-20

• Tuesday, October 20, 5-7 PM
• Location: Chambers Hall (Lower level), 600 Foster Street, Evanston
• Topic: Foundational papers on complex systes
• Readings:
  • Waddington, C.H. 1942. Canalization of Development and the Inheritance of Acquired Characters. Nature 150:563-565. http://books.google.com/books?hl=en&lr=&id=OKkytWTQxeEC&oi=fnd&pg=PA91&dq=Canalization+of+Development+and+the+%3E+Inheritance+of+Acquired+Characters.&ots=vPEIPaV_Rv&sig=a4SeCXaWC0syXjEWiM9L791R_UI#v=onepage&q=Canalization%20of%20Development%20and%20the%20%3E%20Inheritance%20of%20Acquired%20Characters.&f=true   or  Scanned copy
  • Gould, S.J., and N. Eldredge. 1977. Punctuated Equilibria: the Tempo and Mode of Evolution Reconsidered. Paleobiology 3 (2):115-151. http://chaos.swarthmore.edu/courses/SOC26/Bak-Sneppan/07_Gould.pdf
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• Food and beverages sponsored by NICO

 

2009-10-06

• Location: Chambers Hall (Lower level), 600 Foster Street, Evanston
• Topic: Foundational papers on complex systes
• Readings:
  • Anderson, P.W. 1972. More Is Different. Science, New Series 177 (4047):393-396. http://www.sccs.swarthmore.edu/users/08/bblonder/phys120/docs/anderson.pdf
  • Simon, H. 1973. The Organization of Complex Systems. In Hierarchy Theory, edited by H. H. Pattee. New York: George Braziller. http://blog.santafe.edu/wp-content/uploads/2009/03/simon1973.pdf

• Food and beverages sponsored by NICO

 

2009-09-22

• Location: Prairie Moon Restaurant, 1502 Sherman Ave Evanston, IL 60201 
• Reading: The Origins of Order: Self-Organization and Selection in Evolution, by S. A. Kauffman

  This meeting: Chapters 11, 13, and epilogue. No PDFs will be provided.

 

2009-09-08

• Location: Prairie Moon Restaurant, 1502 Sherman Ave Evanston, IL 60201 
• Reading: The Origins of Order: Self-Organization and Selection in Evolution, by S. A. Kauffman

  This meeting: Chapters 7 and 8. No PDFs will be provided.

 

2009-08-18

• Location: Prairie Moon Restaurant, 1502 Sherman Ave Evanston, IL 60201 
• Reading: The Origins of Order: Self-Organization and Selection in Evolution, by S. A. Kauffman

  This meeting: Chapter 5. No PDFs will be provided.

 

2009-08-04

• Location: Prairie Moon Restaurant, 1502 Sherman Ave Evanston, IL 60201 
• Reading: The Origins of Order: Self-Organization and Selection in Evolution, by S. A. Kauffman

  This meeting: Chapter 4. No PDFs will be provided.

 

2009-07-07

• Location: Prairie Moon Restaurant, 1502 Sherman Ave Evanston, IL 60201 
• Reading: The Origins of Order: Self-Organization and Selection in Evolution, by S. A. Kauffman

  This meeting: Preface, Chapter 1, and Introduction to Part I (until page 31). PDF of this part: http://tinyurl.com/menr8g 

 

2009-06-23

• Location: Ground floor of Chambers Hall (NICO)
• Selection of readings (books) for the summer.
• Topic: "Synchronization and synchronizability of complex networks"
• Readings:

  1)  "Synchronization in Small-World Systems", Mauricio Barahona, Louis M Pecora, Phys Rev Lett 054101 (2002) vol. 89(5) http://prola.aps.org/abstract/PRL/v89/i5/e054101

  2) Section X (starting on page 1316) of  "Critical phenomena in complex networks", S Dorogovtsev, A Goltsev, J Mendes, RMP (2008) http://link.aps.org/doi/10.1103/RevModPhys.80.1275.

 

2009-06-09

• Location: Ground floor of Chambers Hall (NICO)
• Suggestions of readings (books) for the summer will be discussed.
• Topic: "Motifs and dynamics in genetic regulatory networks"
• Readings:

  1) Alon. "Network motifs: theory and experimental approaches", Nat Rev Genet (2007) vol. 8 (6) pp. 450-461

  http://www.nature.com/nrg/journal/v8/n6/abs/nrg2102.html

  2) Suel et al. "An excitable gene regulatory circuit induces transient cellular differentiation", Nature (2006) vol. 440 (7083) pp. 545

  http://www.nature.com/nature/journal/v440/n7083/full/nature04588.html

 

2009-05-26, 5-7 PM

• Location: Ground floor of Chambers Hall (NICO)
• Topic: "Attractors in genetic regulated networks and the function of cells"
• Readings:

  1) "Attractors and Democratic Dynamics", Y. Bar-Yam, D. Harmon, B. deBivort, Science 20 February 2009: Vol. 323. no. 5917, pp. 1016 - 1017 http://www.sciencemag.org/cgi/content/full/323/5917/1016

  2) "Metabolic stability and epigenesis in randomly constructed genetic nets", S. A. Kauffman, Journal of Theoretical Biology Volume 22, Issue 3, March 1969, Pages 437-467 http://tinyurl.com/kauffman-abstract  http://tinyurl.com/kauffman-pdf

  3) "Cell Fates as High-Dimensional Attractor States of a Complex Gene Regulatory Network", S. Huang, G. Eichler, Y. Bar-Yam, and D. E. Ingber, Phys. Rev. Lett. 94, 128701 (2005) http://prola.aps.org/abstract/PRL/v94/i12/e128701

 

2009-05-12, 5-7 PM

• Location: Ground floor of Chambers Hall (NICO)
• Topic: "Evolutionary origins of segmentation clocks and homology"
• Readings:

  1) E. M. De Robertis, The molecular ancestry of segmentation mechanisms, PNAS-COMMENTARY vol. 105 (43) pp. 16411-16412 (2008) http://www.pnas.org/content/105/43/16411.abstract

  2) J. I. Pueyo, R. Lanfear, and J. P. Couso, Ancestral Notch-mediated segmentation revealed in the cockroach Periplaneta americana, PNAS vol. 105 (43) pp. 16614-16619 http://www.pnas.org/content/105/43/16614.abstract

  3) M. D. Laubichler,  Homology in Development and the Development of the Homology Concept, Amer. Zool., 40:777–788 (2000) http://icb.oxfordjournals.org/cgi/content/abstract/40/5/777

   

 

2009-04-28, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: he role of inner clocks in development of complex organisms
• Readings:

  1) Time for Chronomics?, Denis Duboule Science 18 July 2003: Vol. 301. no. 5631, p. 277 (Editorial) http://www.sciencemag.org/cgi/content/summary/sci;301/5631/277

  2) "The Segmentation Clock: Converting Embryonic Time into Spatial Pattern", Olivier Pourquié, Science 18 July 2003: Vol. 301. no. 5631, pp. 328 - 330 (Review)  http://www.sciencemag.org/cgi/content/abstract/sci;301/5631/328

  3) "Instability of Hes7 protein is crucial for the somite segmentation clock", Nature Genetics  36, 750 - 754 (2004) http://www.nature.com/ng/journal/v36/n7/abs/ng1372.html

   

 

2009-04-14, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: Spreading of Epidemics
• Readings:

  • The role of the airline transportation network in the prediction and predictability of global, V Colizza, A Barrat, M Barthélemy, A Vespignani, PNAS February 14, 2006 vol. 103 no. 7 2015-2020, http://www.pnas.org/cgi/content/abstract/103/7/2015

  • Smallpox transmission and control: Spatial dynamics in Great Britain, Steven Riley and Neil M. Ferguson, PNAS  August 15, 2006   vol. 103  no. 33  12637-12642, http://www.pnas.org/cgi/content/abstract/103/33/12637

 

2009-03-31, 5-7 PM

• Location: Basement of Chambers Hall (NICO)

• Topic: Social, environmental, and genetic factors in the propagation of diseasesr
• Readings:

  • Social and environmental risk factors in the emergence of infectious diseases, Robin A. Weiss & Anthony J. McMichael, Nature Medicine  10, S70 - S76 (2004)  http://www.nature.com/nm/journal/v10/n12s/full/nm1150.html

  • The Search for Human Obesity Genes,  Anthony G. Comuzzie & David B. Allison, Science 29 May 1998: Vol. 280. no. 5368, pp. 1374 - 1377 http://www.sciencemag.org/cgi/content/full/280/5368/1374

 

2009-03-17, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: Genetic origins of behavior
• Readings:
  • "Beyond Nature and Nurture", Gene E. Robinson, Science 16 April 2004:

    Vol. 304. no. 5669, pp. 397 - 399, http://www.sciencemag.org/cgi/content/summary/304/5669/397?ijkey=02fc3f089680e3559800a292bbf876349c8384b4&keytype2=tf_ipsecsha

  • "Genes and Social Behavior", Gene E. Robinson, Russell D. Fernald, David F. Clayton, Science 7 November 2008:

    Vol. 322. no. 5903, pp. 896 - 900, http://www.sciencemag.org/cgi/content/full/322/5903/896

  • "Searching for Genes Underlying Behavior: Lessons from Circadian Rhythms", Joseph S. Takahashi, Kazuhiro Shimomura, and Vivek Kumar, Science 7 November 2008: Vol. 322. no. 5903, pp. 909 - 912  http://www.sciencemag.org/cgi/content/full/322/5903/909

     

 

2009-03-03, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: Social networks in perspective
• Readings:
  • 'The “New” Science of Networks', Duncan J. Watts, Annu. Rev. Sociol. 2004. 30:243–70. http://arjournals.annualreviews.org/doi/abs/10.1146/annurev.soc.30.020404.104342
  • "Network Analysis in the Social Sciences", Stephen P. Borgatti, Ajay Mehra, Daniel J. Brass, Giuseppe Labianca, Science 2009 vol. 323 (5916) pp. 892. http://www.sciencemag.org/cgi/content/full/323/5916/892

 

 

2009-02-17, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: How contagious are social networks?
• News and Animations:
  • "Friendship as a Health Factor", Jennifer Couzin, News Focus, Science 2009 vol. 323 (5913) pp. 454, http://www.sciencemag.org/cgi/content/full/323/5913/454
  • Science podcast with the reporter: http://www.sciencemag.org/cgi/content/full/sci;323/5913/534b
  • Animation illustrating the main claim of paper 1: http://content.nejm.org/content/vol357/issue4/images/data/370/DC2/NEJM_Christakis_370v1.swf
• Readings:
  • 1. "The Spread of Obesity in a Large Social Network over 32 Years", Nicholas A. Christakis and James H. Fowler, The New England Journal of Medicine 2007 vol. 357 (4) pp. 370; http://content.nejm.org/cgi/content/full/357/4/370
  • 2. "Is obesity contagious? Social networks vs. environmental factors in the obesity epidemic", Ethan Cohen-Cole and Jason M. Fletcher, Journal of Health Economics 2008 vol. 27 (5) pp. 1382-1387; http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6V8K-4SG4HGJ-1&_user=1458830&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000052790&_version=1&_urlVersion=0&_userid=1458830&md5=73ce5fce3432a366e46f1aa9f93c23aa

 

 

2009-02-3, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: Navigability in complex networks
• Readings:
  • "Navigation in a small world", Jon M. Kleinberg, Brief Communications, Nature 406, 845 (2000) http://www.nature.com/nature/journal/v406/n6798/abs/406845a0.html
  • "Navigability of complex networks", Marián Boguñá, Dmitri Krioukov & K. C. Claffy, Nature Physics 5, 74 - 80 (2009), http://www.nature.com/nphys/journal/v5/n1/full/nphys1130.html

 

 

2009-01-20, 5-7 PM

• Location: Basement of Chambers Hall (NICO)
• Topic: Topology and evolution of empirical social networks
• Readings:
  • "Empirical Analysis of an Evolving Social Network", Gueorgi Kossinets and Duncan J. Watts, Science 311 88-90 (2006) http://www.sciencemag.org/cgi/content/full/311/5757/88
  • "The Dynamics of Viral Marketing", Jure Leskovec, Lada Adamic, and Bernardo Huberman, EC'06, Ann Arbor, MI. http://www-personal.umich.edu/~ladamic/papers/viral/viral-market-short.pdf

 

 

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Meetings 2006