Network Inference Working Group Home Page

19 T.W. Alexander Drive
P.O.Box 14006
Research Triangle Park, NC 27709-4006
Tel: 919.685.9350
Fax: 919.685.9360
info@samsi.info

Program on Algebraic Methods in Systems Biology and Statistics

Systems Biology Working Group

Meets: Wednesday, 12:30 - 2:30 in Room

Leaders: Reinhard Laubenbacher and Brandy Stigler
Webmasters: Megan Owen and Saeid Yasamin

Password Protected Site
Goals and Objectives
Working Papers/Drafts for Publication
Reference Materials

Announcements

Nov. 26 meeting cancelled due to Thanksgiving.

MEETING ACTIVITIES
GROUP MEMBERS
REFERENCE LIST
DATA SITES
INSTRUCTIONS FOR DIAL-IN AND WebEx ACCESS

Meeting Activities

** Clicking on a date will take you to that date on the Meeting Summary page **

DATE	TOPICS & Readings	Notes
March 4, 2009	Heike Siebert: Analyzing Discrete Dynamical Systems Using Symbolic Steady States
January 28, 2009	Paola Vera-Licona: Inference of Brain Connectivity Networks
January 14, 2009	Eva Riccomagno: Three applications of algebraic statistics in experimental design
December 10, 2008	Gilles Gnacadja: Introducing complete networks of Reversible Binding Reactions: An effort to encompass certain networks ubiquitous in pharmacology	Abstract Suggested Reading
November 19, 2008	Brandy Stigler: The connection between network inference and experimental design	Suggested reading
November 12, 2008	Discussion of research interests and open problems	Suggested reading
November 6, 2008	Gheorghe Craciun: Identifiability of biochemical reaction networks	Suggested reading
October 29, 2008	Brandy Stigler: Review of "How to infer gene networks from expression profiles"
October 22, 2008	Ian H. Dinwoodie: Reverse engineering binary maps with tree classification
October 15, 2008	Elena S. Dimitrova: Discretization of biological data
October 8, 2008	A general, 3-part framework for considering statistical models	Suggested reading
October 1, 2008	Brandy Stigler: A brief review of recent papers in Network Inference	Suggested reading

Group Members

(email alias for the group is alg-net at samsi.info)

Name	Affiliation	Email Address
Brandon Barker	Cornell University	beb82@cornell.edu
Carsten Conradi		conradi@mpi-magdeburg.mpg.de
Alicia Dickenstein		alidick@dm.uba.ar
Elena Dimitrova	Clemson University	edimit@clemson.edu
Ian Dinwoodie	Duke University	ihd@stat.duke.edu
Mathias Drton	University of Chicago	drton@galton.uchicago.edu
Lee Falin		lee.falin@gmail.com
Stephen Fienberg	Carnegie Mellon University	fienberg@stat.cmu.edu
Thomas Friedrich		friedrich@math.fu-berlin.de
Cedric Genestet	Imperial College London	c.ginestet@imperial.ac.uk
Luis Garcia-Puente	Sam Houston State University	ldg005@shsu.edu
Gilles Gnacadja	Amgen	gnacadja@amgen.com
Richard Haney	Cellular Statistics	rhaney@cellularstatistics.com
Franziska Hinkelmann	Virginia Tech	fhinkel@vt.edu
Serkan Hosten	San Francisco State University	serkan@math.sfsu.edu
Abdul Salam Jarrah	Virginia Tech	ajarrah@vbi.vt.edu
Imre Risi Kondor		risi@gatsby.ucl.ac.uk
Reinhard Laubenbacher	Virginia Tech	reinhard@vbi.vt.edu
Tong Lee		lee.ezra@gmail.com
Shaowei Lin	Univ. of California-Berkeley	shaowei@math.berkeley.edu
Hugo Maruri-Aguilar	London School of Economics	H.Maruri-Aguilar@lse.ac.uk
Edwin O'Shea		edwin@math.cinvestav.mx
Megan Owen	Cornell University	mao29@cornell.edu
Mercedes Soledad Perez Millan		mercedes.s.pm@gmail.com
Dustin Reishus	University of Southern California	reishus@usc.edu
Anne Shiu	Univ. of California-Berkeley	annejls@math.berkeley.edu
Heike Siebert		siebert@mi.fu-berlin.de
Brandy Stigler	Ohio State University	bstigler@mbi.osu.edu
Seth Sullivant	Harvard University	seths@math.harvard.edu
Brett Tyler	Virginia Tech	bmtyler@vt.edu
Jung-Ying Tzeng	N.C. State University	jytzeng@stat.ncsu.edu
Carolina Uhler	Univ. of California-Berkeley	cuhler@stat.berkeley.edu
Alan Veliz-Cuba	Virginia Tech	alanavc@vt.edu
Benjamin Wells	N.C. State University	btwells@ncsu.edu
Henry Wynn	London School of Economics	H.Wynn@lse.ac.uk
Richard Yamata	University of Michigan	yryamada@umich.edu
Shantia Yarahmadian	Indiana University	syarahma@indiana.edu
Saeid Yasamin		syasamin@gmail.com
Yi Ming Zou	University of Wisconsin-Milwaukee	ymzou@uwm.edu
Or Zuk	M.I.T.	orzuk@broad.mit.edu

Reference List

· Optimal design (provided by Richard Haney)

Data Sites

Working Groups Dial-in & WebEx Instructions

1. Go to the email invitation that you received announcing the meeting, or go directly to WebEx: https://samsi.webex.com
2. Click on the link for the meeting you want to join
      • Enter Your Name, Your Email Address and the meeting password from the email invitation
      • The first time you use WebEx, the Meeting Manager will run and it will take about a minute to setup.
    • Now you are in the meeting and can use all the features of WebEx
3. Dial the teleconference line: 919-685-9338.
      • It is necessary to separately call into the given conference-line phone number to obtain audio interaction; we are not able to use WebEx for an audio connection. When calling in:
          o do not use a computer microphone or a speaker phone; this causes severe feedback in the system;
          o headphones and hand-held phones are fine.
      • If cost of telephone calls is an issue, consider using either Skype or JaJah to place your calls to the conference line; these are virtually free within North America, and (for example) only cost roughly 2 cents and 3 cents per minute, respectively, from Europe.
      • Please dial no earlier than 5 minutes prior to the start of the working group meeting.

Please Note: You should be seeing the screen of the presenters. If not, please send a message or call for assistance. WebEx can run slowly on Unix machines.

If you are having trouble with WebEx or the Teleconference line please contact Sue McDonald, sue@samsi.info (919)685-9359 or James Thomas, help@samsi.info (919)685-9307

You can learn more about WebEx and take tutorials at university.webex.com.

This page updated on September 19, 2008 2:51 PM