Researchers and educators from Mount Sinai School of Medicine, Courant Institute of Mathematical Sciences NYU, Stony Brook University (SUNY), City College of New York (CUNY), National Centre for Biological Sciences (India), and the IBM T.J. Watson Research Center.
We want to understand how the effects of molecular interactions are propagated across scales of organization from cells to tissues and organs affecting physiology and pathophysiology. We posit that the dynamic organization of motifs (regulatory loops) within multi-scale networks provides the basis for propagation of effects across scales from molecules to cells to tissues. Drugs have their effects by reorganizing network topology across these scales. We study selected processes in the heart and brain to test these hypotheses.
The goals of the Systems Biology Center New York are to develop and disseminate approaches that provide a mechanistic understanding of how molecular interactions within regulatory networks in cells lead to the physiological function of tissues and organs, and how therapeutic agents affect cellular regulatory networks to alter pathophysiological states i.e. "the therapeutic implications of the design logic of scalability in mammalian systems".
The Systems Biology Center New York will have five undergrad research fellowships for students to be introduced to and learn how to conduct Systems Biology research at the Center at Mount Sinai School of Medicine or in the laboratories of members of the Center. The fellowship will offer a stipend of $2500 for the ten week research period from May 31st to August 6th, 2010.
We invite applications from students entering their junior or senior years. We are particularly interested in applicants who are planning to pursue PhD or MD/PhD degree programs after graduation and who are interested in incorporating computational approaches into the research that they pursue. Applications are due by March 1, 2010 and successful candidates will be notified by April 1, 2010.
GATE: Software for the Analysis and Visualization of High-Dimensional Time-series Expression Data.
Bioinformatics. 2009 Nov 5. [Epub ahead of print]
PMID: 19892805
PubMed Abstract»
Lachmann A, Ma'ayan A.
KEA: kinase enrichment analysis.
Bioinformatics. 2009 Mar 1;25(5):684-6. Epub 2009 Jan 28.
PMID: 19176546
PubMed Abstract»
Ray S, Bhalla US.
PyMOOSE: Interoperable Scripting in Python for MOOSE.
Front Neuroinformatics. 2008;2:6. Epub 2008 Dec 19.
PMID: 19129924
PubMed Abstract»
Berger SI, Posner JM, Ma’ayan A.
Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases.
BMC Bioinformatics. 2007 Oct 4;8:372.
PMID: 17916244
PubMed Abstract»
Abul-Husn NS, Bushlin I, Morón JA, Jenkins SL, Dolios G, Wang R, Iyengar R, Ma’ayan A, Devi LA.
Systems approach to explore components and interactions in the presynapse.
Proteomics 2009 Jun;9(12):3003-15.
PMID: 19562802
PubMed Abstract»
Lipshtat A, Neves SR, Iyengar R.
Specification of spatial relationships in directed graphs of cell signaling networks.
Ann N Y Acad Sci. 2009 Mar;1158:44-56.
PMID: 19348631
PubMed Abstract»
Ma'ayan A,Cecchi GA, Wagner J, Ravi Rao A, Iyengar R, Stolovitzky G.
Ordered cyclic motifs contribute to dynamic stability in biological and engineered networks.
Proc Natl Acad Sci U S A. 2008 Dec 9;105(49):19235-40. Epub 2008 Nov 25.
PMID: 19033453
PubMed Abstract»
