BEARR: Batch Extraction and Analysis of cis-Regulatory Regions | Zendy

Vinsensius B. Vega | Zendy; Dhinoth Bangarusamy | Zendy; Lance D. Miller | Zendy; E. T. Liu | Zendy; ChinYo Lin | Zendy

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BEARR: Batch Extraction and Analysis of cis-Regulatory Regions

Author(s) -

Vinsensius B. Vega,

Dhinoth Bangarusamy,

Lance D. Miller,

E. T. Liu,

ChinYo Lin

Publication year - 2004

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkh396

Subject(s) - biology , computational biology , transcription factor , identifier , microarray analysis techniques , gene , software , identification (biology) , dna microarray , microarray , transcription (linguistics) , genetics , data mining , gene expression , computer science , linguistics , botany , philosophy , programming language

Transcription factors play important roles in regulating biological and disease processes. Microarray technology has enabled researchers to simultaneously monitor changes in the expression of thousands of transcripts. By identifying specific transcription factor binding sites in the cis-regulatory regions of differentially expressed genes, it is then possible to identify direct targets of transcription factors, model transcriptional regulatory networks and mine the dataset for relevant targets for experimental and clinical manipulation. We have developed web-based software to assist biologists in efficiently carrying out the analysis of microarray data from studies of specific transcription factors. Batch Extraction and Analysis of cis-Regulatory Regions, or BEARR, accepts gene identifier lists from microarray data analysis tools and facilitates identification, extraction and analysis of regulatory regions from the large amount of data that is typically generated in these types of studies. The software is publicly available at http://giscompute.gis.a-star.edu.sg/~vega/BEARR1.0/.

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