Literature DB >> 11731507

GeneLynx: a gene-centric portal to the human genome.

B Lenhard1, W S Hayes, W W Wasserman.   

Abstract

GeneLynx is a meta-database providing an extensive collection of hyperlinks to human gene-specific information in diverse databases available on the Internet. The GeneLynx project is based on the simple notion that given any gene-specific identifier (accession number, gene name, text, or sequence), scientists should be able to access a single location that provides a set of links to all the publicly available information pertinent to the specified human gene. GeneLynx was implemented as an extensible relational database with an intuitive and user-friendly Web interface. The data are automatically extracted from more than 40 external resources, using appropriate approaches to maximize coverage of the available data. Construction and curation of the system is mediated by a custom set of software tools. An indexing utility is provided to facilitate the establishment of hyperlinks in external databases. A unique feature of the GeneLynx system is a communal curation system for user-aided annotation. GeneLynx can be accessed freely at http://www.genelynx.org.

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Mesh:

Year:  2001        PMID: 11731507      PMCID: PMC311228          DOI: 10.1101/gr.199801

Source DB:  PubMed          Journal:  Genome Res        ISSN: 1088-9051            Impact factor:   9.043


  13 in total

1.  YPD, PombePD and WormPD: model organism volumes of the BioKnowledge library, an integrated resource for protein information.

Authors:  M C Costanzo; M E Crawford; J E Hirschman; J E Kranz; P Olsen; L S Robertson; M S Skrzypek; B R Braun; K L Hopkins; P Kondu; C Lengieza; J E Lew-Smith; M Tillberg; J I Garrels
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  A literature network of human genes for high-throughput analysis of gene expression.

Authors:  T K Jenssen; A Laegreid; J Komorowski; E Hovig
Journal:  Nat Genet       Date:  2001-05       Impact factor: 38.330

3.  Introducing RefSeq and LocusLink: curated human genome resources at the NCBI.

Authors:  K D Pruitt; K S Katz; H Sicotte; D R Maglott
Journal:  Trends Genet       Date:  2000-01       Impact factor: 11.639

4.  Basic local alignment search tool.

Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

5.  The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000.

Authors:  A Bairoch; R Apweiler
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

6.  The FlyBase database of the Drosophila Genome Projects and community literature.

Authors: 
Journal:  Nucleic Acids Res       Date:  1999-01-01       Impact factor: 16.971

7.  SRS: information retrieval system for molecular biology data banks.

Authors:  T Etzold; A Ulyanov; P Argos
Journal:  Methods Enzymol       Date:  1996       Impact factor: 1.600

8.  WormBase: network access to the genome and biology of Caenorhabditis elegans.

Authors:  L Stein; P Sternberg; R Durbin; J Thierry-Mieg; J Spieth
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

9.  Database resources of the National Center for Biotechnology Information.

Authors:  D L Wheeler; D M Church; A E Lash; D D Leipe; T L Madden; J U Pontius; G D Schuler; L M Schriml; T A Tatusova; L Wagner; B A Rapp
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

10.  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

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  21 in total

1.  The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.

Authors:  Brigitte Boeckmann; Amos Bairoch; Rolf Apweiler; Marie-Claude Blatter; Anne Estreicher; Elisabeth Gasteiger; Maria J Martin; Karine Michoud; Claire O'Donovan; Isabelle Phan; Sandrine Pilbout; Michel Schneider
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

2.  ConSite: web-based prediction of regulatory elements using cross-species comparison.

Authors:  Albin Sandelin; Wyeth W Wasserman; Boris Lenhard
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3.  Ulysses - an application for the projection of molecular interactions across species.

Authors:  Danielle Kemmer; Yong Huang; Sohrab P Shah; Jonathan Lim; Jochen Brumm; Macaire M S Yuen; John Ling; Tao Xu; Wyeth W Wasserman; B F Francis Ouellette
Journal:  Genome Biol       Date:  2005-12-02       Impact factor: 13.583

4.  The UCSC Genome Browser.

Authors:  Donna Karolchik; Angie S Hinrichs; W James Kent
Journal:  Curr Protoc Hum Genet       Date:  2011-10

5.  The UCSC Genome Browser.

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Journal:  Curr Protoc Bioinformatics       Date:  2009-12

6.  Human Gene-Centric Databases at the Weizmann Institute of Science: GeneCards, UDB, CroW 21 and HORDE.

Authors:  Marilyn Safran; Vered Chalifa-Caspi; Orit Shmueli; Tsviya Olender; Michal Lapidot; Naomi Rosen; Michael Shmoish; Yakov Peter; Gustavo Glusman; Ester Feldmesser; Avital Adato; Inga Peter; Miriam Khen; Tal Atarot; Yoram Groner; Doron Lancet
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

7.  GeneLynx mouse: integrated portal to the mouse genome.

Authors:  Boris Lenhard; Claes Wahlestedt; Wyeth W Wasserman
Journal:  Genome Res       Date:  2003-06       Impact factor: 9.043

8.  Distribution of immunodeficiency fact files with XML--from Web to WAP.

Authors:  Jouni Väliaho; Pentti Riikonen; Mauno Vihinen
Journal:  BMC Med Inform Decis Mak       Date:  2005-06-26       Impact factor: 2.796

9.  AbsIDconvert: an absolute approach for converting genetic identifiers at different granularities.

Authors:  Fahim Mohammad; Robert M Flight; Benjamin J Harrison; Jeffrey C Petruska; Eric C Rouchka
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10.  MADIBA: a web server toolkit for biological interpretation of Plasmodium and plant gene clusters.

Authors:  Philip J Law; Clotilde Claudel-Renard; Fourie Joubert; Abraham I Louw; Dave K Berger
Journal:  BMC Genomics       Date:  2008-02-28       Impact factor: 3.969

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