The Bioinformatics Center at Rensselaer and Wadsworth. Research -- Gene Expression


	*The Bioinformatics Center at Rensselaer and Wadsworth*

Gene Expression

Nucleic Acids Folding

Protein Structure
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Gene Expression. Elucidation of Transcription Regulatory Networks

Involved Researcher: Professor Chip Lawrence, Dr. Lee Ann McCue

Introduction: The study of transcriptional regulation is very important branch of bioinformatics research. Elucidation of transcriptional networks may significantly affect many aspects of the future of biological research. Prof. Lawrence uses Bayesian statistical methods to make inferences from multiple genome sequences. The long-term goal of this research is to elucidate the complete wiring diagrams of core transcription regulatory networks. Recent work in his laboratory resulted in the prediction of cis-regulatory elements in E. coli. He is now actively working on extension of these results to several other pathogenic species and to species of environmental interest.

Researcher
Introduction
Main publications in Gene Expression
Online Resources
Publications of general interest
Prof. Lawrence's publications

Part of this work is using novel Bayesian methods to predict sets of co-regulated genes (regulons), and to develop more sensitive methods to scan genomes in order to identify additional genes that belong to a regulon.
In addition, Prof. Lawrence is collaborating with chemical engineers to develop high-throughput technologies to validate these predicted sets and to identify cognate transcription factors. >> more on Prof. Lawrence's research

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Main publications in Gene Expression:
     • McCue L, Thompson W, Carmack C, Lawrence C. 2002. Factors influencing the identification of transcription factor binding sites by cross-species comparison Genome Res 2002 Oct;12(10):1523-32.
     • Kadonaga, J.T. Eukaryotic transcription: an interlaced network of transcription factors and chromatin-modifying machines. Cell 92, 307-313 (1998).

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Publications of general interest:

     • Journal article: Discovery and modeling of transcriptional regulatory regions, Fickett, J.W. & Wasserman, W.W., Curr. Opin. Biotechnol. 11, 19-24 (2000).

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Prof. Lawrence's publications in Gene Expression:
     • Journal articles:
Human-Mouse Genome Comparison to Locate Human Regulatory Sites, Wasserman, WW. Palumbo MJ., Thompson, W. Fickett JW. and Lawrence C., Nature-Genetics 26(2):225-228, 2000

McCue L, Thompson W, Carmack C, Lawrence C. 2002. Factors influencing the identification of transcription factor binding sites by cross-species comparison Genome Res 2002 Oct;12(10):1523-32.

Human-Mouse Genome Comparison to Locate Human Regulatory Sites, Wasserman, WW. Palumbo MJ., Thompson, W. Fickett JW. And Lawrence C., Nature-Genetics 26(2):225-228, 2000

Functional Classification of cNMP-Binding Proteins and Nucleotide Cyclases with Implications for Novel Regulatory Pathways in Mycobacterium Tuberculosis. McCue, L.A. McDonough, K.A. and Lawrence, C.E. Genome Research, 10:204-219, 2000.

Detecting Subtle Sequence Signals: A Gibbs Sampling Strategy for Multiple Alignment. Lawrence, C. Altschul, S. Boguski, M. Liu, J. Neuwald, A. and Wootton, J. Science, 262:208-214, 1993

>>more publications

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