Simbios has been led by an active executive committee, consisting of Drs. Altman, Delp, Pande, and Schmidt. The core staff is located in a collaboratory space provided by the Clark Center for Biomedical Engineering and Science with 1,000 sq. ft. allocated for the personnel and projects associated with Simbios. The highlights of our administrative plan include: ? Continued co-leadership from Drs. Altman, Delp and Pande whose research interests range from protein mechanics to clinical applications. Dr. Altman is a practicing physician and expert in bioinformatics. Dr. Delp is a bioengineer and an expert in biomechanical modeling and simulation. Dr. Pande is a chemist and an expert in molecular dynamics simulation. ? Dr. Jeanette Schmidt serves as Director with scientific credentials in computer science research (algorithms and data structures), and experience in the management of large, collaborative projects at Incyte Pharmaceuticals and then Simbios. ? A set of core investigators made of Core leaders in computer science (Hanrahan), biomedical computation (Pande), biomedical science (Delp), software engineering (Sherman), dissemination (Ku) and administration (Schmidt &Altman) to assess and manage the research and deployment mission. ? Strong institutional support from Stanford (see """"""""Letters of Support: Administration""""""""), including generous allocations of space (Figure ES.10), student support funds, and seed research funds. ? A clear record of establishing a national network of investigators (Figure ES.1). The executive committee will monitor the progress of DBPs, select new DBPs and seed projects. It will coordinate communication with the NIH, other NCBC sites, all of our collaborating R01/R21 grants, as well as other parts of the national biomedical computing infrastructure.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Specialized Center--Cooperative Agreements (U54)
Project #
5U54GM072970-08
Application #
8382389
Study Section
Special Emphasis Panel (ZRG1-BST-K)
Project Start
Project End
Budget Start
2012-09-01
Budget End
2013-08-31
Support Year
8
Fiscal Year
2012
Total Cost
$392,743
Indirect Cost
$181,726
Name
Stanford University
Department
Type
DUNS #
009214214
City
Stanford
State
CA
Country
United States
Zip Code
94305
DeMers, Matthew S; Hicks, Jennifer L; Delp, Scott L (2017) Preparatory co-activation of the ankle muscles may prevent ankle inversion injuries. J Biomech 52:17-23
Sack, Kevin L; Baillargeon, Brian; Acevedo-Bolton, Gabriel et al. (2016) Partial LVAD restores ventricular outputs and normalizes LV but not RV stress distributions in the acutely failing heart in silico. Int J Artif Organs 39:421-430
Shukla, Diwakar; Peck, Ariana; Pande, Vijay S (2016) Conformational heterogeneity of the calmodulin binding interface. Nat Commun 7:10910
Araya, Carlos L; Cenik, Can; Reuter, Jason A et al. (2016) Identification of significantly mutated regions across cancer types highlights a rich landscape of functional molecular alterations. Nat Genet 48:117-25
Dodani, Sheel C; Kiss, Gert; Cahn, Jackson K B et al. (2016) Discovery of a regioselectivity switch in nitrating P450s guided by molecular dynamics simulations and Markov models. Nat Chem 8:419-25
Meng, Yilin; Shukla, Diwakar; Pande, Vijay S et al. (2016) Transition path theory analysis of c-Src kinase activation. Proc Natl Acad Sci U S A 113:9193-8
Sahli Costabal, Francisco; Hurtado, Daniel E; Kuhl, Ellen (2016) Generating Purkinje networks in the human heart. J Biomech 49:2455-65
Uchida, Thomas K; Hicks, Jennifer L; Dembia, Christopher L et al. (2016) Stretching Your Energetic Budget: How Tendon Compliance Affects the Metabolic Cost of Running. PLoS One 11:e0150378
Schwantes, Christian R; Shukla, Diwakar; Pande, Vijay S (2016) Markov State Models and tICA Reveal a Nonnative Folding Nucleus in Simulations of NuG2. Biophys J 110:1716-1719
Seth, Ajay; Matias, Ricardo; Veloso, António P et al. (2016) A Biomechanical Model of the Scapulothoracic Joint to Accurately Capture Scapular Kinematics during Shoulder Movements. PLoS One 11:e0141028

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