Genome-wide promoter extraction and analysis in human, mouse, and rat

Xuan, Z. Y., Zhao, F., Wang, J., Chen, G., Zhang, M. Q. (2005) Genome-wide promoter extraction and analysis in human, mouse, and rat. Genome Biology, 6 (8). R72. ISSN 1465-6906

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URL: http://genomebiology.com/2005/6/8/R72
DOI: 10.1186/gb-2005-6-8-r72

Abstract

Large-scale and high-throughput genomics research needs reliable and comprehensive genome-wide promoter annotation resources. We have conducted a systematic investigation on how to improve mammalian promoter prediction by incorporating both transcript and conservation information. This enabled us to build a better multispecies promoter annotation pipeline and hence to create CSHLmpd (Cold Spring Harbor Laboratory Mammalian Promoter Database) for the biomedical research community, which can act as a starting reference system for more refined functional annotations.

Item Type: Paper
Uncontrolled Keywords: Animals Conserved Sequence genetics CpG Islands genetics Databases Genetic Gene Expression Regulation Genome genetics Genome Human genetics Humans Mice Oligonucleotide Array Sequence Analysis Promoter Regions genetics RNA Messenger genetics metabolism Rats Research Design Sensitivity and Specificity Species Specificity User-Computer Interface
Subjects: bioinformatics > genomics and proteomics > annotation
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription
bioinformatics > genomics and proteomics > databases > database optimization
bioinformatics > genomics and proteomics > databases
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > DNA expression > promoter
CSHL Authors:
Communities: CSHL labs > Zheng lab
Depositing User: CSHL Librarian
Date Deposited: 21 Dec 2011 17:18
Last Modified: 21 Dec 2011 17:18
URI: http://repository.cshl.edu/id/eprint/22738

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