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Functional element SNPs database

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FESD
Content
DescriptionFunctional Element SNPs Database in human.
OrganismsHomo sapiens
Contact
AuthorsHyo Jin Kang
Primary citationKang & al. (2005)[1]
Access
Websitehttp://combio.kribb.re.kr/ksnp/resd/

The Functional Element SNPs Database (FESD) is a biological database of SNPs in human Molecular biology.[1] The Functional Element SNPs Database (FESD) tool is designed to organize functional elements into categories in human gene regions and to output their sequences needed for genotyping experiments as well as provide a set of SNPs that lie within each region. The database defines functional elements into ten types: promoter regions, CpG islands,5' untranslated regions (5'-UTRs), translation start sites, splice sites, coding exons, introns, translation stop sites, polyadenylation signals, and 3' UTRs.[2][3] People may reference this database when haplotyping a gene or chromosome, in hopes of discovering mutations that cause disease. By utilizing the database, researchers can manually choose a group of SNPs of special interest for certain functional elements along with their corresponding sequences.[4] Also, FESD can be used to dteremine predisposition to diseases and conditions.[5] Although the database is useful, it relies on chromosome position and cytogenic banding patterns meaning it cannot recognize manually entered SNPs.[2][6]

References

  1. ^ a b Kang, H. J.; Choi, KO; Kim, BD; Kim, S; Kim, YJ (2004). "FESD: A Functional Element SNPs Database in human". Nucleic Acids Research. 33 (Database issue): D518–22. doi:10.1093/nar/gki082. PMC 540036. PMID 15608252.
  2. ^ a b Mah, James T. L.; Chia, K. S. (2007). "A Gentle Introduction to Snp Analysis: Resources and Tools". Journal of Bioinformatics and Computational Biology. 05 (5): 1123. doi:10.1142/S0219720007003090.
  3. ^ Rhie, Suhn Kyong; Coetzee, Simon G.; Noushmehr, Houtan; Yan, Chunli; Kim, Jae Mun; Haiman, Christopher A.; Coetzee, Gerhard A. (2013). Zhao, Zhongming (ed.). "Comprehensive Functional Annotation of Seventy-One Breast Cancer Risk Loci". PLoS ONE. 8 (5): e63925. doi:10.1371/journal.pone.0063925. PMC 3661550. PMID 23717510.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  4. ^ Yang, Cheng-Hong; Chuang, Li-Yeh; Cheng, Yu-Huei; Wen, Cheng-Hao; Chang, Hsueh-Wei (2009). "Dynamic Programming for Single Nucleotide Polymorphism ID Identification in Systematic Association Studies". The Kaohsiung Journal of Medical Sciences. 25 (4): 165–76. doi:10.1016/S1607-551X(09)70057-9. PMID 19502133.
  5. ^ Taira, Chiaki; Matsuda, Kazuyuki; Yamaguchi, Akemi; Sueki, Akane; Koeda, Hiroshi; Takagi, Fumio; Kobayashi, Yukihiro; Sugano, Mitsutoshi; Honda, Takayuki (2013). "Novel high-speed droplet-allele specific-polymerase chain reaction: Application in the rapid genotyping of single nucleotide polymorphisms". Clinica Chimica Acta. 424: 39. doi:10.1016/j.cca.2013.04.024.
  6. ^ Goodswen, Stephen J; Gondro, Cedric; Watson-Haigh, Nathan S; Kadarmideen, Haja N (2010). "FunctSNP: An R package to link SNPs to functional knowledge and dbAutoMaker: A suite of Perl scripts to build SNP databases". BMC Bioinformatics. 11: 311. doi:10.1186/1471-2105-11-311. PMC 2901372. PMID 20534127.{{cite journal}}: CS1 maint: unflagged free DOI (link)
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