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Select item 45283301.

Gene Model Annotations for Drosophila melanogaster: The Rule-Benders

Madeline A. Crosby, L. Sian Gramates, Gilberto dos Santos, Beverley B. Matthews, Susan E. St. Pierre, Pinglei Zhou, Andrew J. Schroeder, Kathleen Falls, David B. Emmert, Susan M. Russo, William M. Gelbart, the FlyBase Consortium

G3 (Bethesda) 2015 Aug; 5(8): 1737–1749. Published online 2015 Jun 24. doi: 10.1534/g3.115.018937

PMCID:: PMC4528330

Article PDF–2.2M

Select item 45283292.

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

Beverley B. Matthews, Gilberto dos Santos, Madeline A. Crosby, David B. Emmert, Susan E. St. Pierre, L. Sian Gramates, Pinglei Zhou, Andrew J. Schroeder, Kathleen Falls, Victor Strelets, Susan M. Russo, William M. Gelbart, the FlyBase Consortium

G3 (Bethesda) 2015 Aug; 5(8): 1721–1736. Published online 2015 Jun 24. doi: 10.1534/g3.115.018929

PMCID:: PMC4528329

Article PDF–4.9M

Select item 28250533.

Sequence Finishing and Mapping of Drosophila melanogaster Heterochromatin

Roger A. Hoskins, Joseph W. Carlson, Cameron Kennedy, David Acevedo, Martha Evans-Holm, Erwin Frise, Kenneth H. Wan, Soo Park, Maria Mendez-Lago, Fabrizio Rossi, Alfredo Villasante, Patrizio Dimitri, Gary H. Karpen, Susan E. Celniker

Science. Author manuscript; available in PMC 2010 Feb 19.

Published in final edited form as: Science. 2007 Jun 15; 316(5831): 1625–1628. doi: 10.1126/science.1139816

PMCID:: PMC2825053

Article PDF–858K

Select item 28192804.

The Release 5.1 Annotation of Drosophila melanogaster Heterochromatin

Christopher D. Smith, ShengQiang Shu, Christopher J. Mungall, Gary H. Karpen

Science. Author manuscript; available in PMC 2010 Feb 10.

Published in final edited form as: Science. 2007 Jun 15; 316(5831): 1586. doi: 10.1126/science.1139815

Correction in:: volume 317 on page 1325

PMCID:: PMC2819280

Article PDF–1.3M

Select item 11856485.

Combined Evidence Annotation of Transposable Elements in Genome Sequences

Hadi Quesneville, Casey M Bergman, Olivier Andrieu, Delphine Autard, Danielle Nouaud, Michael Ashburner, Dominique Anxolabehere

PLoS Comput Biol. 2005 Jul; 1(2): e22. Published online 2005 Jul 29. doi: 10.1371/journal.pcbi.0010022

PMCID:: PMC1185648

Article PDF–273K

Select item 1511876.

Heterochromatic sequences in a Drosophila whole-genome shotgun assembly

Roger A Hoskins, Christopher D Smith, Joseph W Carlson, A Bernardo Carvalho, Aaron Halpern, Joshua S Kaminker, Cameron Kennedy, Chris J Mungall, Beth A Sullivan, Granger G Sutton, Jiro C Yasuhara, Barbara T Wakimoto, Eugene W Myers, Susan E Celniker, Gerald M Rubin, Gary H Karpen

Genome Biol. 2002; 3(12): research0085.1–85.16. Published online 2002 Dec 31. doi: 10.1186/gb-2002-3-12-research0085

PMCID:: PMC151187

Article PDF–280K

Select item 1511867.

The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective

Joshua S Kaminker, Casey M Bergman, Brent Kronmiller, Joseph Carlson, Robert Svirskas, Sandeep Patel, Erwin Frise, David A Wheeler, Suzanna E Lewis, Gerald M Rubin, Michael Ashburner, Susan E Celniker

Genome Biol. 2002; 3(12): research0084.1–84.2. Published online 2002 Dec 23. doi: 10.1186/gb-2002-3-12-research0084

PMCID:: PMC151186

Article PDF–330K

Select item 1511858.

Annotation of the Drosophila melanogaster euchromatic genome: a systematic review

Sima Misra, Madeline A Crosby, Christopher J Mungall, Beverley B Matthews, Kathryn S Campbell, Pavel Hradecky, Yanmei Huang, Joshua S Kaminker, Gillian H Millburn, Simon E Prochnik, Christopher D Smith, Jonathan L Tupy, Eleanor J Whitfield, Leyla Bayraktaroglu, Benjamin P Berman, Brian R Bettencourt, Susan E Celniker, Aubrey DNJ de Grey, Rachel A Drysdale, Nomi L Harris, John Richter, Susan Russo, Andrew J Schroeder, ShengQiang Shu, Mark Stapleton, Chihiro Yamada, Michael Ashburner, William M Gelbart, Gerald M Rubin, Suzanna E Lewis

Genome Biol. 2002; 3(12): research0083.1–83.22. Published online 2002 Dec 31. doi: 10.1186/gb-2002-3-12-research0083

PMCID:: PMC151185

Article PDF–1.1M

Select item 1511819.

Finishing a whole-genome shotgun: Release 3 of the Drosophila melanogaster euchromatic genome sequence

Susan E Celniker, David A Wheeler, Brent Kronmiller, Joseph W Carlson, Aaron Halpern, Sandeep Patel, Mark Adams, Mark Champe, Shannon P Dugan, Erwin Frise, Ann Hodgson, Reed A George, Roger A Hoskins, Todd Laverty, Donna M Muzny, Catherine R Nelson, Joanne M Pacleb, Soo Park, Barret D Pfeiffer, Stephen Richards, Erica J Sodergren, Robert Svirskas, Paul E Tabor, Kenneth Wan, Mark Stapleton, Granger G Sutton, Craig Venter, George Weinstock, Steven E Scherer, Eugene W Myers, Richard A Gibbs, Gerald M Rubin

Genome Biol. 2002; 3(12): research0079.1–79.14. Published online 2002 Dec 23. doi: 10.1186/gb-2002-3-12-research0079

PMCID:: PMC151181

Article PDF–171K

Select item 517254710.

A Comprehensive Software Suite for the Analysis of cDNAs

Kazuharu Arakawa, Haruo Suzuki, Kosuke Fujishima, Kenji Fujimoto, Sho Ueda, Motomu Matsui, Masaru Tomita

Genomics Proteomics Bioinformatics. 2005; 3(3): 179–188. Published online 2016 Nov 28. doi: 10.1016/S1672-0229(05)03023-8

PMCID:: PMC5172547

Article PDF–541K

Select item 487711211.

Identification of Bari Transposons in 23 Sequenced Drosophila Genomes Reveals Novel Structural Variants, MITEs and Horizontal Transfer

Antonio Palazzo, Domenica Lovero, Pietro D’Addabbo, Ruggiero Caizzi, René Massimiliano Marsano

PLoS One. 2016; 11(5): e0156014. Published online 2016 May 23. doi: 10.1371/journal.pone.0156014

PMCID:: PMC4877112

Article PDF–5.7M

Select item 480125812.

Novel family of terpene synthases evolved from trans-isoprenyl diphosphate synthases in a flea beetle

Franziska Beran, Peter Rahfeld, Katrin Luck, Raimund Nagel, Heiko Vogel, Natalie Wielsch, Sandra Irmisch, Srinivasan Ramasamy, Jonathan Gershenzon, David G. Heckel, Tobias G. Köllner

Proc Natl Acad Sci U S A. 2016 Mar 15; 113(11): 2922–2927. Published online 2016 Mar 2. doi: 10.1073/pnas.1523468113

PMCID:: PMC4801258

Article PDF–865K

Select item 438392113.

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

Gilberto dos Santos, Andrew J. Schroeder, Joshua L. Goodman, Victor B. Strelets, Madeline A. Crosby, Jim Thurmond, David B. Emmert, William M. Gelbart, the FlyBase Consortium

Nucleic Acids Res. 2015 Jan 28; 43(Database issue): D690–D697. Published online 2014 Nov 14. doi: 10.1093/nar/gku1099

PMCID:: PMC4383921

Article PDF–1.7M

Select item 402237014.

Distinguishing migration from isolation using genes with intragenic recombination: detecting introgression in the Drosophila simulans species complex

Miguel Navascués, Delphine Legrand, Cécile Campagne, Marie-Louise Cariou, Frantz Depaulis

BMC Evol Biol. 2014; 14: 89. Published online 2014 Apr 24. doi: 10.1186/1471-2148-14-89

PMCID:: PMC4022370

Article PDF–1010K

Select item 358247215.

LTRsift: a graphical user interface for semi-automatic classification and postprocessing of de novo detected LTR retrotransposons

Sascha Steinbiss, Sascha Kastens, Stefan Kurtz

Mob DNA. 2012; 3: 18. Published online 2012 Nov 7. doi: 10.1186/1759-8753-3-18

PMCID:: PMC3582472

Article PDF–1.8M

Select item 346941816.

New Partners in Regulation of Gene Expression: The Enhancer of Trithorax and Polycomb Corto Interacts with Methylated Ribosomal Protein L12 Via Its Chromodomain

Anne Coléno-Costes, Suk Min Jang, Augustin de Vanssay, Julien Rougeot, Tahar Bouceba, Neel B. Randsholt, Jean-Michel Gibert, Stéphane Le Crom, Emmanuèle Mouchel-Vielh, Sébastien Bloyer, Frédérique Peronnet

PLoS Genet. 2012 Oct; 8(10): e1003006. Published online 2012 Oct 11. doi: 10.1371/journal.pgen.1003006