A Drosophila full-length cDNA resource
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* Corresponding author: Mark Stapleton staple@fruitfly.org
Genome Biology 2002, 3:research0080-0080.8 doi:10.1186/gb-2002-3-12-research0080
This article is part of a series of refereed research articles from Berkeley Drosophila Genome Project, FlyBase and colleagues, describing Release 3 of the Drosophila genome, which are freely available at http://genomebiology.com/drosophila/.
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Sandra N Loevenich, Erich Brunner, Nichole L King, Eric W Deutsch, Stephen E Stein, Ruedi Aebersold, Ernst Hafen BMC Bioinformatics 2009, 10:59 (11 February 2009) |
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Research article
Chaofu Lu, James G Wallis, John Browse BMC Plant Biology 2007, 7:42 (31 July 2007) In the developing endosperm of castor seeds, transcript annotation has led to the discovery that transcriptional regulation of oleate desaturase (FAD2) and oleate hydroxylase (FAH12) contribute to the accumulation of ricinoleate, an important industrial raw material.
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Research
Global analysis of patterns of gene expression during Drosophila embryogenesis Pavel Tomancak, Benjamin P Berman, Amy Beaton, Richard Weiszmann, Elaine Kwan, Volker Hartenstein, Susan E Celniker, Gerald M Rubin Genome Biology 2007, 8:R145 (23 July 2007) Embryonic expression patterns for 6,003 (44%) of the 13,659 protein-coding genes identified in the |
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Method
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Method
John Wang, Stephanie Jemielity, Paolo Uva, Yannick Wurm, Johannes Gräff, Laurent Keller Genome Biology 2007, 8:R9 (15 January 2007) An annotated EST resource for the fire ant Solenopsis invicta containing 21,715 ESTs, which represent 11,864 putatively different transcripts, and a corresponding cDNA microarray are described. |
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Method
Florian Hahne, Dorit Arlt, Mamatha Sauermann, Meher Majety, Annemarie Poustka, Stefan Wiemann, Wolfgang Huber Genome Biology 2006, 7:R77 (17 August 2006) A software tool for the analysis of high-throughput cell-based assays is presented. |
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Research article
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Challenging the spliceosome machine Michael Weir, Matthew Eaton, Michael Rice Genome Biology 2006, 7:R3 (17 January 2006) Analysis of a set of almost 25,000 donor and acceptor splice sites in |
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Paucity of chimeric gene-transposable element transcripts in the Drosophila melanogaster genome Mikhail Lipatov, Kapa Lenkov, Dmitri A Petrov, Casey M Bergman BMC Biology 2005, 3:24 (12 November 2005) Less than 1% of Drosophila transcripts contain 'chimeric' transposable elements, whereas a large proportion of mammalian genomes are known to be derived from TEs; population genetics implies that most fly gene-TE chimeras are deleterious, but a few may contribute to novel gene sequences.
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A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adults Michael Parisi, Rachel Nuttall, Pamela Edwards, James Minor, Daniel Naiman, Jining Lü, Michael Doctolero, Marina Vainer, Cathy Chan, James Malley, Scott Eastman, Brian Oliver Genome Biology 2004, 5:R40 (1 June 2004) A global analysis of sex-biased transcription in |
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Genome-wide analysis of mRNA lengths in Saccharomyces cerevisiae Evan H Hurowitz, Patrick O Brown Genome Biology 2003, 5:R2 (22 December 2003) A novel 'Virtual Northern' method provides a practical and efficient method for genome-scale analysis of mRNA transcript lengths. A study in |
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Minireview
Haiqiong Montalta-He, Heinrich Reichert Genome Biology 2003, 4:205 (28 January 2003) The establishment of a database of gene-expression patterns derived from systematic highthroughput |
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Research
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 Biology 2002, 3:research0085-0085.16 (31 December 2002) This article is part of a collection on Release 3 of the... Annotation of an improved whole-genome shotgun assembly of the |
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Research
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 Biology 2002, 3:research0083-0083.22 (31 December 2002) This article is part of a collection on Release 3 of the... The recent completion of the |
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Research
Casey M Bergman, Barret D Pfeiffer, Diego E Rincón-Limas, Roger A Hoskins, Andreas Gnirke, Chris J Mungall, Adrienne M Wang, Brent Kronmiller, Joanne Pacleb, Soo Park, Mark Stapleton, Kenneth Wan, Reed A George, Pieter J de Jong, Juan Botas, Gerald M Rubin, Susan E Celniker Genome Biology 2002, 3:research0086-0086.20 (30 December 2002) This article is part of a collection on Release 3 of the... Analysis of conservation in eight genomic regions ( |
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Research
Systematic determination of patterns of gene expression during Drosophila embryogenesis Pavel Tomancak, Amy Beaton, Richard Weiszmann, Elaine Kwan, ShengQiang Shu, Suzanna E Lewis, Stephen Richards, Michael Ashburner, Volker Hartenstein, Susan E Celniker, Gerald M Rubin Genome Biology 2002, 3:research0088-0088.14 (23 December 2002) This article is part of a collection on Release 3 of the... As a first step to creating a comprehensive atlas of gene-expression patterns during |
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Software
Apollo: a sequence annotation editor SE Lewis, SMJ Searle, N Harris, M Gibson, V Iyer, J Richter, C Wiel, L Bayraktaroglu, E Birney, MA Crosby, JS Kaminker, BB Matthews, SE Prochnik, CD Smith, JL Tupy, GM Rubin, S Misra, CJ Mungall, ME Clamp Genome Biology 2002, 3:research0082-0082.14 (23 December 2002) This article is part of a collection on Release 3 of the... Apollo was developed to enable curators to inspect genome annotations closely and edit them. FlyBase biologists successfully used Apollo to annotate the |
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Software
An integrated computational pipeline and database to support whole-genome sequence annotation CJ Mungall, S Misra, BP Berman, J Carlson, E Frise, N Harris, B Marshall, S Shu, JS Kaminker, SE Prochnik, CD Smith, E Smith, JL Tupy, C Wiel, GM Rubin, SE Lewis Genome Biology 2002, 3:research0081-0081.11 (23 December 2002) This article is part of a collection on Release 3 of the... In the course of annotating the |