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Items: 1 to 20 of 112

1.

WormBase as an integrated platform for the C. elegans ORFeome.

Chen N, Lawson D, Bradnam K, Harris TW, Stein LD.

Genome Res. 2004 Oct;14(10B):2155-61.

2.

C. elegans ORFeome version 3.1: increasing the coverage of ORFeome resources with improved gene predictions.

Lamesch P, Milstein S, Hao T, Rosenberg J, Li N, Sequerra R, Bosak S, Doucette-Stamm L, Vandenhaute J, Hill DE, Vidal M.

Genome Res. 2004 Oct;14(10B):2064-9.

3.

Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions.

Wei C, Lamesch P, Arumugam M, Rosenberg J, Hu P, Vidal M, Brent MR.

Genome Res. 2005 Apr;15(4):577-82.

4.

WormBase: a multi-species resource for nematode biology and genomics.

Harris TW, Chen N, Cunningham F, Tello-Ruiz M, Antoshechkin I, Bastiani C, Bieri T, Blasiar D, Bradnam K, Chan J, Chen CK, Chen WJ, Davis P, Kenny E, Kishore R, Lawson D, Lee R, Muller HM, Nakamura C, Ozersky P, Petcherski A, Rogers A, Sabo A, Schwarz EM, Van Auken K, Wang Q, Durbin R, Spieth J, Sternberg PW, Stein LD.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D411-7.

5.

C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression.

Reboul J, Vaglio P, Rual JF, Lamesch P, Martinez M, Armstrong CM, Li S, Jacotot L, Bertin N, Janky R, Moore T, Hudson JR Jr, Hartley JL, Brasch MA, Vandenhaute J, Boulton S, Endress GA, Jenna S, Chevet E, Papasotiropoulos V, Tolias PP, Ptacek J, Snyder M, Huang R, Chance MR, Lee H, Doucette-Stamm L, Hill DE, Vidal M.

Nat Genet. 2003 May;34(1):35-41.

PMID:
12679813
6.

Methods and strategies for gene structure curation in WormBase.

Williams GW, Davis PA, Rogers AS, Bieri T, Ozersky P, Spieth J.

Database (Oxford). 2011 May 3;2011:baq039. doi: 10.1093/database/baq039. Print 2011.

7.

High-throughput expression of C. elegans proteins.

Luan CH, Qiu S, Finley JB, Carson M, Gray RJ, Huang W, Johnson D, Tsao J, Reboul J, Vaglio P, Hill DE, Vidal M, Delucas LJ, Luo M.

Genome Res. 2004 Oct;14(10B):2102-10.

8.

WorfDB: the Caenorhabditis elegans ORFeome Database.

Vaglio P, Lamesch P, Reboul J, Rual JF, Martinez M, Hill D, Vidal M.

Nucleic Acids Res. 2003 Jan 1;31(1):237-40.

9.

Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome.

Salehi-Ashtiani K, Lin C, Hao T, Shen Y, Szeto D, Yang X, Ghamsari L, Lee H, Fan C, Murray RR, Milstein S, Svrzikapa N, Cusick ME, Roth FP, Hill DE, Vidal M.

Genome Res. 2009 Dec;19(12):2334-42. doi: 10.1101/gr.098640.109. Epub 2009 Oct 2.

10.

WormBase: a comprehensive data resource for Caenorhabditis biology and genomics.

Chen N, Harris TW, Antoshechkin I, Bastiani C, Bieri T, Blasiar D, Bradnam K, Canaran P, Chan J, Chen CK, Chen WJ, Cunningham F, Davis P, Kenny E, Kishore R, Lawson D, Lee R, Muller HM, Nakamura C, Pai S, Ozersky P, Petcherski A, Rogers A, Sabo A, Schwarz EM, Van Auken K, Wang Q, Durbin R, Spieth J, Sternberg PW, Stein LD.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D383-9.

11.

WormBase: a cross-species database for comparative genomics.

Harris TW, Lee R, Schwarz E, Bradnam K, Lawson D, Chen W, Blasier D, Kenny E, Cunningham F, Kishore R, Chan J, Muller HM, Petcherski A, Thorisson G, Day A, Bieri T, Rogers A, Chen CK, Spieth J, Sternberg P, Durbin R, Stein LD.

Nucleic Acids Res. 2003 Jan 1;31(1):133-7.

12.

WormBase: a comprehensive resource for nematode research.

Harris TW, Antoshechkin I, Bieri T, Blasiar D, Chan J, Chen WJ, De La Cruz N, Davis P, Duesbury M, Fang R, Fernandes J, Han M, Kishore R, Lee R, Müller HM, Nakamura C, Ozersky P, Petcherski A, Rangarajan A, Rogers A, Schindelman G, Schwarz EM, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Yook K, Durbin R, Stein LD, Spieth J, Sternberg PW.

Nucleic Acids Res. 2010 Jan;38(Database issue):D463-7. doi: 10.1093/nar/gkp952. Epub 2009 Nov 12.

13.

WormBase 2016: expanding to enable helminth genomic research.

Howe KL, Bolt BJ, Cain S, Chan J, Chen WJ, Davis P, Done J, Down T, Gao S, Grove C, Harris TW, Kishore R, Lee R, Lomax J, Li Y, Muller HM, Nakamura C, Nuin P, Paulini M, Raciti D, Schindelman G, Stanley E, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Wright A, Yook K, Berriman M, Kersey P, Schedl T, Stein L, Sternberg PW.

Nucleic Acids Res. 2016 Jan 4;44(D1):D774-80. doi: 10.1093/nar/gkv1217. Epub 2015 Nov 17.

14.

WormBase: methods for data mining and comparative genomics.

Harris TW, Stein LD.

Methods Mol Biol. 2006;351:31-50. Review.

PMID:
16988424
15.

WormBase 2007.

Rogers A, Antoshechkin I, Bieri T, Blasiar D, Bastiani C, Canaran P, Chan J, Chen WJ, Davis P, Fernandes J, Fiedler TJ, Han M, Harris TW, Kishore R, Lee R, McKay S, Müller HM, Nakamura C, Ozersky P, Petcherski A, Schindelman G, Schwarz EM, Spooner W, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Yook K, Durbin R, Stein LD, Spieth J, Sternberg PW.

Nucleic Acids Res. 2008 Jan;36(Database issue):D612-7. Epub 2007 Nov 8.

16.

A map of the interactome network of the metazoan C. elegans.

Li S, Armstrong CM, Bertin N, Ge H, Milstein S, Boxem M, Vidalain PO, Han JD, Chesneau A, Hao T, Goldberg DS, Li N, Martinez M, Rual JF, Lamesch P, Xu L, Tewari M, Wong SL, Zhang LV, Berriz GF, Jacotot L, Vaglio P, Reboul J, Hirozane-Kishikawa T, Li Q, Gabel HW, Elewa A, Baumgartner B, Rose DJ, Yu H, Bosak S, Sequerra R, Fraser A, Mango SE, Saxton WM, Strome S, Van Den Heuvel S, Piano F, Vandenhaute J, Sardet C, Gerstein M, Doucette-Stamm L, Gunsalus KC, Harper JW, Cusick ME, Roth FP, Hill DE, Vidal M.

Science. 2004 Jan 23;303(5657):540-3. Epub 2004 Jan 2.

17.
18.

Searching WormBase for information about Caenorhabditis elegans.

Schwarz EM, Sternberg PW.

Curr Protoc Bioinformatics. 2006 Jul;Chapter 1:Unit 1.8. doi: 10.1002/0471250953.bi0108s14.

PMID:
18428757
19.

WormBase: new content and better access.

Bieri T, Blasiar D, Ozersky P, Antoshechkin I, Bastiani C, Canaran P, Chan J, Chen N, Chen WJ, Davis P, Fiedler TJ, Girard L, Han M, Harris TW, Kishore R, Lee R, McKay S, Müller HM, Nakamura C, Petcherski A, Rangarajan A, Rogers A, Schindelman G, Schwarz EM, Spooner W, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Durbin R, Stein LD, Sternberg PW, Spieth J.

Nucleic Acids Res. 2007 Jan;35(Database issue):D506-10. Epub 2006 Nov 11.

20.

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

Stein L, Sternberg P, Durbin R, Thierry-Mieg J, Spieth J.

Nucleic Acids Res. 2001 Jan 1;29(1):82-6.

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