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Bhak, Jong
KOrean GenomIcs Center(KOGIC)
Research Interests
  • Geromics, genomics, bioinformatics, protein Engineering, OMICS

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SNP@Promoter: a database of human SNPs (Single Nucleotide Polymorphisms) within the putative promoter regions

Cited 35 times inthomson ciCited 37 times inthomson ci
Title
SNP@Promoter: a database of human SNPs (Single Nucleotide Polymorphisms) within the putative promoter regions
Other Titles
SNP@Promoter: A database of human SNPs (Single Nucleotide Polymorphisms) within putative promoter region.
Author
Kim, Byoung-ChulKim, Woo-YeonPark, DaeuiChung, Won-HyongShin, KwangsikBhak, Jong Hwa
Keywords
TRANSCRIPTION FACTOR-BINDING; CIS-REGULATORY MODULES; RSNP-GUIDE; SITES; ELEMENTS; DNA; SYSTEM; GENOME; GENE; ASSOCIATION
Issue Date
2008-02
Publisher
BIOMED CENTRAL LTD
Citation
BMC BIOINFORMATICS, v.9, no.S2, pp.SUPPL. 1 -
Abstract
Background: Analysis of single nucleotide polymorphism (SNP) is becoming a key research in genomics fields. Many functional analyses of SNPs have been carried out for coding regions and splicing sites that can alter proteins and mRNA splicing. However, SNPs in non-coding regulatory regions can also influence important biological regulation. Presently, there are few databases for SNPs in non-coding regulatory regions. Description: We identified 488,452 human SNPs in the putative promoter regions that extended from the +5000 bp to -500 bp region of the transcription start sites. Some SNPs occurring in transcription factor (TF) binding sites were also predicted (47,832 SNP; 9.8%). The result is stored in a database: SNP@promoter. Users can search the SNP@Promoter database using three entries: 1) by SNP identifier (rs number from dbSNP), 2) by gene (gene name, gene symbol, refSeq ID), and 3) by disease term. The SNP@Promoter database provides extensive genetic information and graphical views of queried terms. Conclusion: We present the SNP@Promoter database. It was created in order to predict functional SNPs in putative promoter regions and predicted transcription factor binding sites. SNP@Promoter will help researchers to identify functional SNPs in non-coding regions
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DOI
10.1186/1471-2105-9-S1-S2
ISSN
1471-2105
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BME_Journal Papers
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