NIH P50: Difference between revisions

Revision as of 18:27, 24 October 2006

Center for Biological Systems Architecture (CBSA)

Christina D. Smolke (PI)
Anand Asthagiri David Baltimore John Doyle Michael Elowitz
Grant Jensen Richard Murray Dianne Newman Rob Phillips

Goals

Experimental and theoretical tools for understanding the regulatory architecture of cells and multi-cellular systems
Education of the next generation of systems biologists
Application of new tools to driving applications

Objectives

CDS: A modular platform for detecting activation through signalling pathways using FRED-basted molecular sensors applied to mapK signalling pathways.

Timeline

24 Oct, 3 pm: objectives + writing assignments
30 Oct-2 Nov: work on individual sections
3 Nov (Fri): first cut at individual sections due
5 Nov (Sun): first draft of full proposal out
6-10 Nov: updates to individual sections
13 Nov (Mon): second cut at individual sections due
14-15 Nov: CDS writing
16-19 Nov: Grants.gov massaging
20-21 Nov: polishing

Proposal Outline

Program summary (2 pages)

Statement of goals and objectives (milestones)
Build off of vision statement
What makes us unique? Bringing together three essential elements
- Computational and theoretical infrastucture for pursuing regulatory architectures
- Unique experimental platforms
- Unique combination of driving biological problems
Move from small scale static to large scale, dynamic
- Look across a class of biological applications
- Make use of theory and computational tools to guide experiments
- Spatial structure and stochastics become important (primarily affect the dynamics of regulation)

Organizational structure/decision making plan (2 pages)

Christina Smolke (PI)

Thrust I: Theory and computation

Model-checking and SOS methods for analysis of regulatory networks (John)
Stochastic simulation/SBML with spatial structure (John, CACR)
Feedback design of synthetic regulatory structures (Richard, John)

Thrust II: Experimental Platforms

FRET-based molecular sensors (Christina)
Cryo-EM (Grant)
Single-cell measurements (Rob, Michael, Christina)

Thrust III: Driving Biological Problems

NFkB, G-protein, MAPK signal transduction [& inflammation?] (David, Anand)
Multi-component phosphorelays in bacterial fate choice and development (Michael)
Regulatory architectures in biofilms (Dianne)
Regulatory architectures in bacterial envelopes and structures (Grant, Rob, ???)
Re-engineering core microbial processes/metabolic engineering (Christina)

Postdoc program
Seed funding?

Visitors
Workshop

Center development and outreach plans (5 pages)

Resaerch projects and preliminary studies (30 pages)

Core facilities (10 pages)

Intellectual property plan (1 page)

Diversity (URM) plan (2 pages)

Timeline (2 pages)

List of milestones for years 1, 2, 3 and 4-5

@@ Line 45: / Line 45: @@
 ==== Organizational structure/decision making plan (2 pages) ====
+{| border=1 width=100%
+|-
+| colspan=3 align = center| '''Christina Smolke (PI)'''
+|-
+| width=33% | '''Thrust I: Theory and computation'''
+* Model-checking and SOS methods for analysis of regulatory networks (John)
+* Stochastic simulation/SBML with spatial structure (John, CACR)
+* Feedback design of synthetic regulatory structures (Richard, John)
+| width=33% | '''Thrust II: Experimental Platforms'''
+* FRET-based molecular sensors (Christina)
+* Cryo-EM (Grant)
+* Single-cell measurements (Rob, Michael, Christina)
+| width=33% | '''Thrust III: Driving Biological Problems'''
+* NFkB, G-protein, MAPK signal transduction [& inflammation?] (David, Anand)
+* Multi-component phosphorelays in bacterial fate choice and development (Michael)
+* Regulatory architectures in biofilms (Dianne)
+* Regulatory architectures in bacterial envelopes and structures (Grant, Rob, ???)
+* Re-engineering core microbial processes/metabolic engineering (Christina)
+|-
+| colspan=3 |
+{| width=100%
+|- valign=top
+| width=50% |
+* Postdoc program
+* Seed funding?
+| width=50% |
+* Visitors
+* Workshop
+|}
+|}
 ==== Center development and outreach plans (5 pages) ====