Organizers:    Réka Albert and  Melik Demirel

Location: There will be PicTel communication between CG623 Hersey (HY) and 514 Wartik Lab University Park (UP) for the discussion group:
Time: 1:00pm-2:00pm Wednesday (see the agenda below)
How to join: If you are interested, please e-mail me  ( so that we will add you to the list.
Click to the links on agenda  for extra information and presentations (pdf)

See our workshop: "Biologically Inspired Nanomaterials"




  • Boolean modeling of gene regulatory networks: Reka Albert Ref


  • Clustering and Diversity of Fluctuations for Proteins: Melik Demirel Ref




  • Welcome and discussion: Reka Albert & Melik Demirel welcome.pdf
  • Talk: "Toll Like Receptors & BioDetection: A Review": Melik Demirel presentation
  • Ref: Ruslan Medzhitov and Charles A. Janeway, Jr., Science 2002 April 12; 296: 298-300 ref


  • Talk:  "Bacterial chemotaxis and the question of high gain in signal transduction " : Reka Albert presentation
  • Ref:1 Robert B. Bourret and Ann. M. Stock, Molecular Information Processing: Lessons from bacterial chemotaxis, Journal of Biological Chemistry 277, 9625 (2002) ref1
    Ref2: Victor Sourjik and Howard C. Berg, Receptor sensitivity in bacterial chemotaxis, PNAS 99, 123 (2002) ref2


  • Talk:  "Thermo-responsive and Biodegradable Polymeric Systems for Drug Delivery and Tissue Engineering." : Tao Lu Lowe / presentation
  • Ref1: Lockman PR, Mumper RJ, Khan MA, et al. Nanoparticle technology for drug delivery across the blood-brain barrier  DRUG DEV IND PHARM 28 (1): 1-13 2002 ref


  • Proposal discussion on "Biological networks": Time change for this meeting only 10-11am (same place) agenda



  • Welcome: Reka Albert & Melik Demirel
  • Talk: "Bordetella-host interactions: data, theory and human health implications of modeling interactions" Eric Harvill / presentation
  • Ref1: Kirimanjeswara GS, et al., Role of antibodies in immunity to Bordetella infections INFECT IMMUN 71 (4):1719-1724 2003 ref1


  • Talk: "Analyzing the topological features and redesigning metabolic networks" Costas Maranas
  • Ref1: Burgard, AP, et al., OptKnock: A Bilevel Programming Framework for Identifying Gene..., BIOTECH. & BIOENG, 85 (7), 2003 ref1


  • Talk-PhD Student: A Prototype System for Computer-Aided Hypothesis Evaluation: Hybrow, Nigam Shah
  • Ref: Racunas et al, ref1, ref2


  • Talk-Postdoctoral Candidate:  Spreading of disease in heterogeneous population, Jaewook Joo, Rutgers University
  • Ref: Joo, et al, ref1


  • Talk-Faculty Candidate:  "Molecular Design of Peptidic Nanoparticles-From Simple Coiled-Coils to Targeted Drug Delivery and Synthetic Vaccines", Peter Burkhard, University of Basel, Switzerland
  • Ref: Burkhard et al, ref1


  • Talk-Postdoctoral Candidate: "Structural ordering in non-native proteins", Cambridge University, UK
  • Ref: Lindorff-Larsen K, Kristjansdottir S, Teilum K, Fieber W, Dobson CM,  Poulsen FM, Vendruscolo M. Determination of an ensemble of structures representing the denatured state of the bovine acyl-coenzyme a binding protein. J Am Chem Soc. 2004 Mar 17;126(10):3291-9.




  • Talk-"Two-Peak and Three-Peak Optimal Complex Networks" André X. C. N. Valente, Division  of Engineering and Applied Sciences, Harvard University

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