Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 105

1.

Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data.

Matthews BB, Dos Santos G, Crosby MA, Emmert DB, St Pierre SE, Gramates LS, Zhou P, Schroeder AJ, Falls K, Strelets V, Russo SM, Gelbart WM; FlyBase Consortium.

G3 (Bethesda). 2015 Jun 24;5(8):1721-36. doi: 10.1534/g3.115.018929.

2.

Gene Model Annotations for Drosophila melanogaster: The Rule-Benders.

Crosby MA, Gramates LS, Dos Santos G, Matthews BB, St Pierre SE, Zhou P, Schroeder AJ, Falls K, Emmert DB, Russo SM, Gelbart WM; FlyBase Consortium.

G3 (Bethesda). 2015 Jun 24;5(8):1737-49. doi: 10.1534/g3.115.018937.

3.

The Drosophila melanogaster transcriptome by paired-end RNA sequencing.

Daines B, Wang H, Wang L, Li Y, Han Y, Emmert D, Gelbart W, Wang X, Li W, Gibbs R, Chen R.

Genome Res. 2011 Feb;21(2):315-24. doi: 10.1101/gr.107854.110. Epub 2010 Dec 22.

4.

Integrating RNA-seq and ChIP-seq data to characterize long non-coding RNAs in Drosophila melanogaster.

Chen MJ, Chen LK, Lai YS, Lin YY, Wu DC, Tung YA, Liu KY, Shih HT, Chen YJ, Lin YL, Ma LT, Huang JL, Wu PC, Hong MY, Chu FH, Wu JT, Li WH, Chen CY.

BMC Genomics. 2016 Mar 11;17:220. doi: 10.1186/s12864-016-2457-0.

5.

FlyBase: introduction of the Drosophila melanogaster Release 6 reference genome assembly and large-scale migration of genome annotations.

dos Santos G, Schroeder AJ, Goodman JL, Strelets VB, Crosby MA, Thurmond J, Emmert DB, Gelbart WM; FlyBase Consortium.

Nucleic Acids Res. 2015 Jan;43(Database issue):D690-7. doi: 10.1093/nar/gku1099. Epub 2014 Nov 14.

6.

Comparative validation of the D. melanogaster modENCODE transcriptome annotation.

Chen ZX, Sturgill D, Qu J, Jiang H, Park S, Boley N, Suzuki AM, Fletcher AR, Plachetzki DC, FitzGerald PC, Artieri CG, Atallah J, Barmina O, Brown JB, Blankenburg KP, Clough E, Dasgupta A, Gubbala S, Han Y, Jayaseelan JC, Kalra D, Kim YA, Kovar CL, Lee SL, Li M, Malley JD, Malone JH, Mathew T, Mattiuzzo NR, Munidasa M, Muzny DM, Ongeri F, Perales L, Przytycka TM, Pu LL, Robinson G, Thornton RL, Saada N, Scherer SE, Smith HE, Vinson C, Warner CB, Worley KC, Wu YQ, Zou X, Cherbas P, Kellis M, Eisen MB, Piano F, Kionte K, Fitch DH, Sternberg PW, Cutter AD, Duff MO, Hoskins RA, Graveley BR, Gibbs RA, Bickel PJ, Kopp A, Carninci P, Celniker SE, Oliver B, Richards S.

Genome Res. 2014 Jul;24(7):1209-23. doi: 10.1101/gr.159384.113.

7.
8.

Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.

Misra S, Crosby MA, Mungall CJ, Matthews BB, Campbell KS, Hradecky P, Huang Y, Kaminker JS, Millburn GH, Prochnik SE, Smith CD, Tupy JL, Whitfied EJ, Bayraktaroglu L, Berman BP, Bettencourt BR, Celniker SE, de Grey AD, Drysdale RA, Harris NL, Richter J, Russo S, Schroeder AJ, Shu SQ, Stapleton M, Yamada C, Ashburner M, Gelbart WM, Rubin GM, Lewis SE.

Genome Biol. 2002;3(12):RESEARCH0083. Epub 2002 Dec 31. Review.

9.

Towards comprehensive annotation of Drosophila melanogaster enzymes in FlyBase.

Garapati PV, Zhang J, Rey AJ, Marygold SJ.

Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/bay144.

10.
11.

Deep sequencing the circadian and diurnal transcriptome of Drosophila brain.

Hughes ME, Grant GR, Paquin C, Qian J, Nitabach MN.

Genome Res. 2012 Jul;22(7):1266-81. doi: 10.1101/gr.128876.111. Epub 2012 Apr 3.

12.

New gene models and alternative splicing in the maize pathogen Colletotrichum graminicola revealed by RNA-Seq analysis.

Schliebner I, Becher R, Hempel M, Deising HB, Horbach R.

BMC Genomics. 2014 Oct 2;15:842. doi: 10.1186/1471-2164-15-842.

13.

Genome-guided transcript assembly by integrative analysis of RNA sequence data.

Boley N, Stoiber MH, Booth BW, Wan KH, Hoskins RA, Bickel PJ, Celniker SE, Brown JB.

Nat Biotechnol. 2014 Apr;32(4):341-6. doi: 10.1038/nbt.2850. Epub 2014 Mar 16.

15.

Deep developmental transcriptome sequencing uncovers numerous new genes and enhances gene annotation in the sponge Amphimedon queenslandica.

Fernandez-Valverde SL, Calcino AD, Degnan BM.

BMC Genomics. 2015 May 15;16:387. doi: 10.1186/s12864-015-1588-z.

16.

FlyBase 102--advanced approaches to interrogating FlyBase.

St Pierre SE, Ponting L, Stefancsik R, McQuilton P; FlyBase Consortium.

Nucleic Acids Res. 2014 Jan;42(Database issue):D780-8. doi: 10.1093/nar/gkt1092. Epub 2013 Nov 13.

17.

FlyBase 101--the basics of navigating FlyBase.

McQuilton P, St Pierre SE, Thurmond J; FlyBase Consortium.

Nucleic Acids Res. 2012 Jan;40(Database issue):D706-14. doi: 10.1093/nar/gkr1030. Epub 2011 Nov 29.

18.

GENCODE: the reference human genome annotation for The ENCODE Project.

Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken BL, Barrell D, Zadissa A, Searle S, Barnes I, Bignell A, Boychenko V, Hunt T, Kay M, Mukherjee G, Rajan J, Despacio-Reyes G, Saunders G, Steward C, Harte R, Lin M, Howald C, Tanzer A, Derrien T, Chrast J, Walters N, Balasubramanian S, Pei B, Tress M, Rodriguez JM, Ezkurdia I, van Baren J, Brent M, Haussler D, Kellis M, Valencia A, Reymond A, Gerstein M, Guigó R, Hubbard TJ.

Genome Res. 2012 Sep;22(9):1760-74. doi: 10.1101/gr.135350.111.

19.

Using FlyBase, a Database of Drosophila Genes and Genomes.

Marygold SJ, Crosby MA, Goodman JL; FlyBase Consortium.

Methods Mol Biol. 2016;1478:1-31. Review.

20.

Analysis of Drosophila melanogaster testis transcriptome.

Vedelek V, Bodai L, Grézal G, Kovács B, Boros IM, Laurinyecz B, Sinka R.

BMC Genomics. 2018 Sep 24;19(1):697. doi: 10.1186/s12864-018-5085-z.

Supplemental Content

Support Center