C&SP Summary
Collaboration & Service Projects Summary
C&SP # and title |
Collaborator PI (s) |
Institution of |
TR&D (a) |
MMBioS Leader & Co-Is |
External Funding (source/grant code, title, and start-end dates) |
5. Modeling immunoreceptor signaling, autophagy, and endocytosis |
William Hlavacek |
U of New Mexico, Los Alamos Natl lab |
3 |
Faeder |
NCI, 5R01-GM111510-02, Hardening Software for Rule-Based Modeling (Hlavacek) 8/1/14-4/30/18 |
7. Interfacing image-derived generative models with cell simulation engines |
Michael Hucka, Leslie M. Loew, James C. Schaff |
Caltech, U Conn |
2, 3, 4 |
Murphy, Faeder, Bartol, Hood |
5P41-GM103313-18: National Resource for Cell Analysis and Modeling (Loew) 9/30/98-4/30/17 |
8. Using generative models of cell organization to investigate drug mechanisms and tumor cell heterogeneity |
Steven J. Altschuler, Lani Wu |
UCSF |
4 |
Murphy |
NCI: R01-CA133253-06: Lung Cancer Heterogeneity and its Impact on Drug Resistance 8/1/10-5/31/16 |
15. Reconstructing zebrafish neural circuits controlling visually induced behaviors |
Florian Engert, David L. Hildebrand, |
Harvard |
2 |
Wetzel, Hood |
NINDS: 5U01-NS090449 Neural Circuits in Zebrafish Form, Function and Plasticity (Engert) 9/30/14-7/31/17 |
16. Latent factor models for identification of novel neuroprotectives for Huntington’s Disease |
Robert M. Friedlander, ME. Schurdak, Andrew M. Stern, D. Lansing Taylor |
U of Pittsburgh, UPMC |
1 |
Bahar |
R01-NS077748-04: Functional Role of Micro RNAS in Huntington’s Disease Pathogenesis (Friedlander) 2/15/12-1/31/17 |
17. NMJ Calcium signaling |
Stephen D. Meriney Peter Wipf |
U of Pittsburgh |
1, 2 |
Bartol, Bahar, Hood, Cheng, Laghaei, Czech |
NINDS, 5R01-NS090644-02, CRCNS: Transmitter Release Site Organization in Plasticity and Disease at the NMJ 8/1/14-5/31/19 |
18.Effect of RNA-editing of ADAR1 on the activity of ionotropic glutamate receptors |
QingDe Wang |
UPMC |
1 |
Bahar |
NIH 5R21CA158650-02 Function of a novel molecule ADAR1 in endothelial cells for angiogenesis 4/15/2016 - 3/31/2018 |
19. Mapping the supramolecular organization of dendritic spines to model the regulation of synaptic signal transfer |
Mark H. Ellisman Andreas Herz |
UCSD Ludwig-Maximilians U, Munich, Germany |
2, 4 |
Sejnowski Bartol |
NIDA: R01-DA038896-02: CRCNS: Deciphering the dynamical multiscale structure-function of dendritic spines 7/1/14-6/30/19 |
20. Structural plasticity of chaperonins determined by cryo-electron microscopy: Modeling the machinery of GroEL and TRiC |
Wah Chiu |
Baylor College of Medicine |
1, 4 |
Bahar |
P01NS092525 “From structure to therapy: the TRiC chaperonin network in Huntington’s disease” (Chiu, Co-PI) 4/1/2016-31/3/2021 5P41-GM103832-31: 3D Electron Microscopy of Macromolecules 12/1/96-12/31/19 |
22. Modeling T cell fate decisions |
Penelope Morel, Robin E. C. Lee |
U of Pittsburgh |
3 |
Faeder |
Juvenile Diabetes Research Foundation 1-INO-2016-215-A-N (Morel) 06/01/2016-05/31/2017 |
23. CaMKII structural dynamics |
John Kuriyan |
Berkeley |
1, 2, 3 |
Bahar, Faeder Sejnowski, Bartol |
|
24. Spatio-temporal cell biology |
Alan Horwitz, Gregory Johnson |
Allen Institute |
4 |
Murphy |
The Allen Foundation has provided $100 million to create the Allen Institute for Cell Science to support the collection of cell images |
26. GPCR signaling and interactions. Learning from SILAC/ proteomics |
Kunhong (Kevin) Xiao |
U Pitt |
1, 3 |
Bahar, Faeder |
NHLBI: 2P01-HL07544311, Novel Mechanisms and Therapies in Heart Failure (PI: Rockman, Duke U) Proteomics and Structure Core (PI: Xiao) 8/1/2015 7/31/2020 |
27. Circuit reconstruction of association cortex |
Lee |
Harvard |
2 |
|
NIDCD: 5R03-DC013622-03: Network Anatomy of Olfactory Processing 9/18/13-8/31/16 |
28. Dynamic modulation of interferon binding affinity as a mechanism to regulate interferon receptor signaling |
Gideon Schreiber |
Weizmann Institute, Israel |
1, 3 |
Bahar, Faeder |
ISF (Israel Science Foundation) Center of Research Excellence for Integrated Structural Cell Biology, 2013-2018 |
29. Spatiotemporal models of autophagy |
Joern Dengjel |
University of Frieburg |
4 |
Murphy |
Swiss National Fund 31003A_ 166482/1 Stimulus and time dependent protein dynamics in autophagy analyzed by quantitative MS |
30. Modeling of Tetrahymena basal body dynamics |
Chad G. Pearson |
University of Colorado, Denver |
4 |
Murphy |
5R01GM099820-04, Mechanisms of Centriole Assembly and Stability 9/24/12-7/31/17 |
31. Receptor Clustering and the Kinetics of T Cell-Mediated Killing |
Yuri Sykulev |
Thomas Jefferson University |
3 |
Faeder |
5R21AI113819-02 Exploiting an Artificial APC to Induce Different T Subsets 1/1/15-12/31/16 |
32. Integrating compartmental rule-based modeling into VCell |
Schaff, Blinov, Moraru, Les Loew |
U Connecticut Health Center |
3 |
Faeder, Bartol |
5P41-GM103313-18: National Resource for Cell Analysis and Modeling (Loew) 9/30/98-4/30/17 |
33. Integration of rule-based modeling capabilities with pySB modeling platform |
Carlos F. Lopez |
Vanderbilt |
3 |
Faeder |
|
34. Development of a high-level, rule-based whole-cell modeling language |
Jonathan Karr |
Mt. Sinai |
3 |
Faeder |
NSF 1548123L, ERASynBio: MiniCell - A Model-driven approach to minimal cell engineering (Karr) 12/17/2015 - 7/31/2018 |