The goal of this research proposal is to develop and implement new computational methods that describe transcription factor networks, the """"""""hardwired"""""""" genetic signals that control many developmental and other cellular processes. The method uses large gene expression data sets and raw sequence of regulatory regions to correlate expression of a transcription factor with a potential binding sequence, that is, any short motif in the regulatory regions of expressed genes. The first stage of the project calls for developing the algorithm using existing microarray expression data sets and raw upstream sequence. The second part of the proposal entails adapting the technique to a multicellular organism and developing molecular techniques to gather cell-type specific expression data. Transcription factors have been implicated in human genetic disease (e.g. retinoblastoma). Understanding transcription factor networks has great potential for treatment of diseases and developmental defects.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Postdoctoral Individual National Research Service Award (F32)
Project #
5F32GM020716-02
Application #
6385256
Study Section
Genome Study Section (GNM)
Program Officer
Tompkins, Laurie
Project Start
2000-07-01
Project End
Budget Start
2001-07-01
Budget End
2002-06-30
Support Year
2
Fiscal Year
2001
Total Cost
$34,832
Indirect Cost
Name
New York University
Department
Biostatistics & Other Math Sci
Type
Schools of Arts and Sciences
DUNS #
004514360
City
New York
State
NY
Country
United States
Zip Code
10012
Birnbaum, Kenneth; Shasha, Dennis E; Wang, Jean Y et al. (2003) A gene expression map of the Arabidopsis root. Science 302:1956-60