Literature DB >> 21154707

Searching NCBI's dbSNP database.

Medha Bhagwat1.   

Abstract

The Single-Nucleotide Polymorphism database (dbSNP) is a variation database at the National Center for Biotechnology Information (NCBI). It is a public repository of submitted nucleotide variations and is part of NCBI's search and retrieval system Entrez. This unit describes two basic protocols to search dbSNP effectively, one to perform a text-based search and another to perform a sequence-based search. The unit also describes one of the result display formats called GeneView to obtain information about all submitted SNPs in a particular gene.

Entities:  

Mesh：

Year:  2010        PMID： 21154707      PMCID： PMC3078622          DOI： 10.1002/0471250953.bi0119s32

Source DB:  PubMed          Journal:  Curr Protoc Bioinformatics        ISSN： 1934-3396


  12 in total

1.  dbSNP: the NCBI database of genetic variation.

Authors:  S T Sherry; M H Ward; M Kholodov; J Baker; L Phan; E M Smigielski; K Sirotkin
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  Cn3D: sequence and structure views for Entrez.

Authors:  Y Wang; L Y Geer; C Chappey; J A Kans; S H Bryant
Journal:  Trends Biochem Sci       Date:  2000-06       Impact factor: 13.807

Review 3.  Genomic medicine--a primer.

Authors:  Alan E Guttmacher; Francis S Collins
Journal:  N Engl J Med       Date:  2002-11-07       Impact factor: 91.245

Review 4.  Genomic medicine--an updated primer.

Authors:  W Gregory Feero; Alan E Guttmacher; Francis S Collins
Journal:  N Engl J Med       Date:  2010-05-27       Impact factor: 91.245

5.  A database of locus-specific databases.

Authors:  Ourania Horaitis; C Conover Talbot; Manyphong Phommarinh; Kate M Phillips; Richard G H Cotton
Journal:  Nat Genet       Date:  2007-04       Impact factor: 38.330

6.  Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders.

Authors:  Ada Hamosh; Alan F Scott; Joanna Amberger; Carol Bocchini; David Valle; Victor A McKusick
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

7.  The sequence of the human genome.

Authors:  J C Venter; M D Adams; E W Myers; P W Li; R J Mural; G G Sutton; H O Smith; M Yandell; C A Evans; R A Holt; J D Gocayne; P Amanatides; R M Ballew; D H Huson; J R Wortman; Q Zhang; C D Kodira; X H Zheng; L Chen; M Skupski; G Subramanian; P D Thomas; J Zhang; G L Gabor Miklos; C Nelson; S Broder; A G Clark; J Nadeau; V A McKusick; N Zinder; A J Levine; R J Roberts; M Simon; C Slayman; M Hunkapiller; R Bolanos; A Delcher; I Dew; D Fasulo; M Flanigan; L Florea; A Halpern; S Hannenhalli; S Kravitz; S Levy; C Mobarry; K Reinert; K Remington; J Abu-Threideh; E Beasley; K Biddick; V Bonazzi; R Brandon; M Cargill; I Chandramouliswaran; R Charlab; K Chaturvedi; Z Deng; V Di Francesco; P Dunn; K Eilbeck; C Evangelista; A E Gabrielian; W Gan; W Ge; F Gong; Z Gu; P Guan; T J Heiman; M E Higgins; R R Ji; Z Ke; K A Ketchum; Z Lai; Y Lei; Z Li; J Li; Y Liang; X Lin; F Lu; G V Merkulov; N Milshina; H M Moore; A K Naik; V A Narayan; B Neelam; D Nusskern; D B Rusch; S Salzberg; W Shao; B Shue; J Sun; Z Wang; A Wang; X Wang; J Wang; M Wei; R Wides; C Xiao; C Yan; A Yao; J Ye; M Zhan; W Zhang; H Zhang; Q Zhao; L Zheng; F Zhong; W Zhong; S Zhu; S Zhao; D Gilbert; S Baumhueter; G Spier; C Carter; A Cravchik; T Woodage; F Ali; H An; A Awe; D Baldwin; H Baden; M Barnstead; I Barrow; K Beeson; D Busam; A Carver; A Center; M L Cheng; L Curry; S Danaher; L Davenport; R Desilets; S Dietz; K Dodson; L Doup; S Ferriera; N Garg; A Gluecksmann; B Hart; J Haynes; C Haynes; C Heiner; S Hladun; D Hostin; J Houck; T Howland; C Ibegwam; J Johnson; F Kalush; L Kline; S Koduru; A Love; F Mann; D May; S McCawley; T McIntosh; I McMullen; M Moy; L Moy; B Murphy; K Nelson; C Pfannkoch; E Pratts; V Puri; H Qureshi; M Reardon; R Rodriguez; Y H Rogers; D Romblad; B Ruhfel; R Scott; C Sitter; M Smallwood; E Stewart; R Strong; E Suh; R Thomas; N N Tint; S Tse; C Vech; G Wang; J Wetter; S Williams; M Williams; S Windsor; E Winn-Deen; K Wolfe; J Zaveri; K Zaveri; J F Abril; R Guigó; M J Campbell; K V Sjolander; B Karlak; A Kejariwal; H Mi; B Lazareva; T Hatton; A Narechania; K Diemer; A Muruganujan; N Guo; S Sato; V Bafna; S Istrail; R Lippert; R Schwartz; B Walenz; S Yooseph; D Allen; A Basu; J Baxendale; L Blick; M Caminha; J Carnes-Stine; P Caulk; Y H Chiang; M Coyne; C Dahlke; A Deslattes Mays; M Dombroski; M Donnelly; D Ely; S Esparham; C Fosler; H Gire; S Glanowski; K Glasser; A Glodek; M Gorokhov; K Graham; B Gropman; M Harris; J Heil; S Henderson; J Hoover; D Jennings; C Jordan; J Jordan; J Kasha; L Kagan; C Kraft; A Levitsky; M Lewis; X Liu; J Lopez; D Ma; W Majoros; J McDaniel; S Murphy; M Newman; T Nguyen; N Nguyen; M Nodell; S Pan; J Peck; M Peterson; W Rowe; R Sanders; J Scott; M Simpson; T Smith; A Sprague; T Stockwell; R Turner; E Venter; M Wang; M Wen; D Wu; M Wu; A Xia; A Zandieh; X Zhu
Journal:  Science       Date:  2001-02-16       Impact factor: 47.728

8.  NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.

Authors:  Kim D Pruitt; Tatiana Tatusova; Donna R Maglott
Journal:  Nucleic Acids Res       Date:  2006-11-27       Impact factor: 16.971

9.  The diploid genome sequence of an individual human.

Authors:  Samuel Levy; Granger Sutton; Pauline C Ng; Lars Feuk; Aaron L Halpern; Brian P Walenz; Nelson Axelrod; Jiaqi Huang; Ewen F Kirkness; Gennady Denisov; Yuan Lin; Jeffrey R MacDonald; Andy Wing Chun Pang; Mary Shago; Timothy B Stockwell; Alexia Tsiamouri; Vineet Bafna; Vikas Bansal; Saul A Kravitz; Dana A Busam; Karen Y Beeson; Tina C McIntosh; Karin A Remington; Josep F Abril; John Gill; Jon Borman; Yu-Hui Rogers; Marvin E Frazier; Stephen W Scherer; Robert L Strausberg; J Craig Venter
Journal:  PLoS Biol       Date:  2007-09-04       Impact factor: 8.029

10.  Database indexing for production MegaBLAST searches.

Authors:  Aleksandr Morgulis; George Coulouris; Yan Raytselis; Thomas L Madden; Richa Agarwala; Alejandro A Schäffer
Journal:  Bioinformatics       Date:  2008-06-21       Impact factor: 6.937
View more
  29 in total

1.  Personal genomic information management and personalized medicine: challenges, current solutions, and roles of HIM professionals.

Authors:  Amal Alzu'bi; Leming Zhou; Valerie Watzlaf
Journal:  Perspect Health Inf Manag       Date:  2014-04-01

2.  An in silico approach to characterize nonsynonymous SNPs and regulatory SNPs in human TOX3 gene.

Authors:  Mehran Akhtar; Tazkira Jamal; Jalal Ud Din; Chandni Hayat; Mamoona Rauf; Syed Manzoor Ul Haq; Raham Sher Khan; Aftab Ali Shah; Muhsin Jamal; Fazal Jalil
Journal:  J Genet       Date:  2019-12       Impact factor: 1.166

3.  Identification of functional SNPs in BARD1 gene and in silico analysis of damaging SNPs: based on data procured from dbSNP database.

Authors:  Ali A Alshatwi; Tarique N Hasan; Naveed A Syed; Gowhat Shafi; B Leena Grace
Journal:  PLoS One       Date:  2012-10-09       Impact factor: 3.240

4.  Genome Maps, a new generation genome browser.

Authors:  Ignacio Medina; Francisco Salavert; Rubén Sanchez; Alejandro de Maria; Roberto Alonso; Pablo Escobar; Marta Bleda; Joaquín Dopazo
Journal:  Nucleic Acids Res       Date:  2013-06-08       Impact factor: 16.971

5.  VARIANT: Command Line, Web service and Web interface for fast and accurate functional characterization of variants found by Next-Generation Sequencing.

Authors:  Ignacio Medina; Alejandro De Maria; Marta Bleda; Francisco Salavert; Roberto Alonso; Cristina Y Gonzalez; Joaquin Dopazo
Journal:  Nucleic Acids Res       Date:  2012-06-11       Impact factor: 16.971

6.  Mutations in the RNA exosome component gene EXOSC3 cause pontocerebellar hypoplasia and spinal motor neuron degeneration.

Authors:  Jijun Wan; Michael Yourshaw; Hafsa Mamsa; Sabine Rudnik-Schöneborn; Manoj P Menezes; Ji Eun Hong; Derek W Leong; Jan Senderek; Michael S Salman; David Chitayat; Pavel Seeman; Arpad von Moers; Luitgard Graul-Neumann; Andrew J Kornberg; Manuel Castro-Gago; María-Jesús Sobrido; Masafumi Sanefuji; Perry B Shieh; Noriko Salamon; Ronald C Kim; Harry V Vinters; Zugen Chen; Klaus Zerres; Monique M Ryan; Stanley F Nelson; Joanna C Jen
Journal:  Nat Genet       Date:  2012-04-29       Impact factor: 38.330

7.  Personal receptor repertoires: olfaction as a model.

Authors:  Tsviya Olender; Sebastian M Waszak; Maya Viavant; Miriam Khen; Edna Ben-Asher; Alejandro Reyes; Noam Nativ; Charles J Wysocki; Dongliang Ge; Doron Lancet
Journal:  BMC Genomics       Date:  2012-08-21       Impact factor: 3.969

8.  Functional and Structural Consequences of Damaging Single Nucleotide Polymorphisms in Human Prostate Cancer Predisposition Gene RNASEL.

Authors:  Amit Datta; Md Habibul Hasan Mazumder; Afrin Sultana Chowdhury; Md Anayet Hasan
Journal:  Biomed Res Int       Date:  2015-07-08       Impact factor: 3.411

9.  Structural modeling and in silico analysis of non-synonymous single nucleotide polymorphisms of human 3β-hydroxysteroid dehydrogenase type 2.

Authors:  Achintya Mohan Goswami
Journal:  Meta Gene       Date:  2015-08-08

10.  Predicting the Most Deleterious Missense Nonsynonymous Single-Nucleotide Polymorphisms of Hennekam Syndrome-Causing CCBE1 Gene, In Silico Analysis.

Authors:  Khyber Shinwari; Liu Guojun; Svetlana S Deryabina; Mikhail A Bolkov; Irina A Tuzankina; Valery A Chereshnev
Journal:  ScientificWorldJournal       Date:  2021-06-10
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.