Skip Navigation

Nucleic Acids Research 2005 33(Database Issue):D390-D395; doi:10.1093/nar/gki046
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (1028K) Freely available
Right arrow Supplementary Material
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Drysdale, R. A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Drysdale, R. A.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2005, Vol. 33, Database issue D390-D395
© 2005, the authors
Nucleic Acids Research, Vol. 33, Database issue © Oxford University Press 2005; all rights reserved

FlyBase: genes and gene models

Rachel A. Drysdale*, Madeline A. Crosby1 and The FlyBase Consortium

Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK and 1 The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA

* To whom correspondence should be addressed. Tel: +44 1223 333963; Fax: +44 1223 333992; Email: rd120{at}gen.cam.ac.uk
The FlyBase Consortium: W. Gelbart, K. Campbell, M. Crosby, D. Emmert, B. Matthews, S. Russo, A. Schroeder, F. Smutniak, P. Zhang, P. Zhou and M. Zytkovicz (Biological Laboratories, Harvard University, Cambridge, MA, USA); M. Ashburner, R. Drysdale, A. de Grey, R. Foulger, G. Millburn, D. Sutherland and C. Yamada (Department of Genetics, University of Cambridge, Cambridge, UK); T. Kaufman, K. Matthews, A. DeAngelo, R. K. Cook, D. Gilbert, J. Goodman, G. Grumbling, H. Sheth and V. Strelets (Department of Biology, Indiana University, Bloomington, IN, USA); G. Rubin, M. Gibson, N. Harris, S. Lewis, S. Misra and S. Q. Shu (University of California, Berkeley, CA, USA and Lawrence Berkeley National Laboratories, CA, USA)

Received September 15, 2004; Revised and Accepted September 28, 2004

FlyBase (http://flybase.org) is the primary repository of genetic and molecular data of the insect family Drosophilidae. For the most extensively studied species, Drosophila melanogaster, a wide range of data are presented in integrated formats. Data types include mutant phenotypes, molecular characterization of mutant alleles and aberrations, cytological maps, wild-type expression patterns, anatomical images, transgenic constructs and insertions, sequence-level gene models and molecular classification of gene product functions. There is a growing body of data for other Drosophila species; this is expected to increase dramatically over the next year, with the completion of draft-quality genomic sequences of an additional 11 Drosphila species.

The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use permissions, please contact journals.permissions{at}oupjournals.org.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
B. Ahsan, T. L. Saito, S.-i. Hashimoto, K. Muramatsu, M. Tsuda, A. Sasaki, K. Matsushima, T. Aigaki, and S. Morishita
MachiBase: a Drosophila melanogaster 5'-end mRNA transcription database
Nucleic Acids Res., October 8, 2008; (2008) gkn694v1.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
R. S. Linheiro and C. M. Bergman
Testing the palindromic target site model for DNA transposon insertion using the Drosophila melanogaster P-element
Nucleic Acids Res., October 1, 2008; (2008) gkn563v1.
[Abstract] [Full Text] [PDF]

Home page
 DevelopmentHome page
N. Colombie, C. F. Cullen, A. L. Brittle, J. K. Jang, W. C. Earnshaw, M. Carmena, K. McKim, and H. Ohkura
Dual roles of Incenp crucial to the assembly of the acentrosomal metaphase spindle in female meiosis
Development, October 1, 2008; 135(19): 3239 - 3246.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Biol. CellHome page
J. Alves-Silva, I. Hahn, O. Huber, M. Mende, A. Reissaus, and A. Prokop
Prominent Actin Fiber Arrays in Drosophila Tendon Cells Represent Architectural Elements Different from Stress Fibers
Mol. Biol. Cell, October 1, 2008; 19(10): 4287 - 4297.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
D. Chen, J. Berger, M. Fellner, and T. Suzuki
FLYSNPdb: a high-density SNP database of Drosophila melanogaster
Nucleic Acids Res., September 10, 2008; (2008) gkn583v1.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
Z. Xun, R. A. Sowell, T. C. Kaufman, and D. E. Clemmer
Quantitative Proteomics of a Presymptomatic A53T {alpha}-Synuclein Drosophila Model of Parkinson Disease
Mol. Cell. Proteomics, July 1, 2008; 7(7): 1191 - 1203.
[Abstract] [Full Text] [PDF]

Home page
 Brief BioinformHome page
D. L. Rubin, N. H. Shah, and N. F. Noy
Biomedical ontologies: a functional perspective
Brief Bioinform, January 1, 2008; 9(1): 75 - 90.
[Abstract] [Full Text] [PDF]

Home page
 J. Cell Biol.Home page
O. M. Lancaster, C. F. Cullen, and H. Ohkura
NHK-1 phosphorylates BAF to allow karyosome formation in the Drosophila oocyte nucleus
J. Cell Biol., December 3, 2007; 179(5): 817 - 824.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
Y. Cheng and H. A. Nash
Drosophila TRP channels require a protein with a distinctive motif encoded by the inaF locus
PNAS, November 6, 2007; 104(45): 17730 - 17734.
[Abstract] [Full Text] [PDF]

Home page
 Brief Funct Genomic ProteomicHome page
G. Spudich, X. M. Fernandez-Suarez, and E. Birney
Genome browsing with Ensembl: a practical overview
Brief Funct Genomic Proteomic, October 29, 2007; (2007) elm025v1.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
D. S. Wei and Y. S. Rong
A Genetic Screen For DNA Double-Strand Break Repair Mutations in Drosophila
Genetics, September 1, 2007; 177(1): 63 - 77.
[Abstract] [Full Text] [PDF]

Home page
 J. Cell Sci.Home page
A. Jung, M. Hollmann, and M. A. Schafer
The fatty acid elongase NOA is necessary for viability and has a somatic role in Drosophila sperm development
J. Cell Sci., August 15, 2007; 120(16): 2924 - 2934.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
E. N. Andreyeva, T. D. Kolesnikova, O. V. Demakova, M. Mendez-Lago, G. V. Pokholkova, E. S. Belyaeva, F. Rossi, P. Dimitri, A. Villasante, and I. F. Zhimulev
High-resolution analysis of Drosophila heterochromatin organization using SuUR Su(var)3-9 double mutants
PNAS, July 31, 2007; 104(31): 12819 - 12824.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
Y. Huang, H. Li, H. Hu, X. Yan, M. S. Waterman, H. Huang, and X. J. Zhou
Systematic discovery of functional modules and context-specific functional annotation of human genome
Bioinformatics, July 1, 2007; 23(13): i222 - i229.
[Abstract] [Full Text] [PDF]

Home page
 CarcinogenesisHome page
S. Y. Kim and W. C. Hahn
Cancer genomics: integrating form and function
Carcinogenesis, July 1, 2007; 28(7): 1387 - 1392.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
C. D. Smith, S. Shu, C. J. Mungall, and G. H. Karpen
The Release 5.1 Annotation of Drosophila melanogaster Heterochromatin
Science, June 15, 2007; 316(5831): 1586 - 1591.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
J.-P. Gauthier, F. Legeai, A. Zasadzinski, C. Rispe, and D. Tagu
AphidBase: a database for aphid genomic resources
Bioinformatics, March 15, 2007; 23(6): 783 - 784.
[Abstract] [Full Text] [PDF]

Home page
 FASEB J.Home page
J. V. Llorens, J. A. Navarro, M. J. Martinez-Sebastian, M. K. Baylies, S. Schneuwly, J. A. Botella, and M. D. Molto
Causative role of oxidative stress in a Drosophila model of Friedreich ataxia
FASEB J, February 1, 2007; 21(2): 333 - 344.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
O. V. Demakova, G. V. Pokholkova, T. D. Kolesnikova, S. A. Demakov, E. N. Andreyeva, E. S. Belyaeva, and I. F. Zhimulev
The SU(VAR)3-9/HP1 Complex Differentially Regulates the Compaction State and Degree of Underreplication of X Chromosome Pericentric Heterochromatin in Drosophila melanogaster
Genetics, February 1, 2007; 175(2): 609 - 620.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
K. D. Pruitt, T. Tatusova, and D. R. Maglott
NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D61 - D65.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Lee, Y. Lee, B. Kim, Y. Shin, S. Nam, P. Kim, N. Kim, W.-H. Chung, J. Kim, and S. Lee
ECgene: an alternative splicing database update
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D99 - D103.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. S. Alioto
U12DB: a database of orthologous U12-type spliceosomal introns
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D110 - D115.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
D. Zuo, S. E. Mohr, Y. Hu, E. Taycher, A. Rolfs, J. Kramer, J. Williamson, and J. LaBaer
PlasmID: a centralized repository for plasmid clone information and distribution
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D680 - D684.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. Horn, Z. Arziman, J. Berger, and M. Boutros
GenomeRNAi: a database for cell-based RNAi phenotypes
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D492 - D497.
[Abstract] [Full Text] [PDF]

Home page
 RNAHome page
M. Stapleton, J. W. Carlson, and S. E. Celniker
RNA editing in Drosophila melanogaster: New targets and functional consequences
RNA, November 1, 2006; 12(11): 1922 - 1932.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
S. Foret and R. Maleszka
Function and evolution of a gene family encoding odorant binding-like proteins in a social insect, the honey bee (Apis mellifera)
Genome Res., November 1, 2006; 16(11): 1404 - 1413.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
E. B. Rubin, Y. Shemesh, M. Cohen, S. Elgavish, H. M. Robertson, and G. Bloch
Molecular and phylogenetic analyses reveal mammalian-like clockwork in the honey bee (Apis mellifera) and shed new light on the molecular evolution of the circadian clock
Genome Res., November 1, 2006; 16(11): 1352 - 1365.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
P. K. Dearden, M. J. Wilson, L. Sablan, P. W. Osborne, M. Havler, E. McNaughton, K. Kimura, N. V. Milshina, M. Hasselmann, T. Gempe, et al.
Patterns of conservation and change in honey bee developmental genes
Genome Res., November 1, 2006; 16(11): 1376 - 1384.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
C. Montchamp-Moreau, D. Ogereau, N. Chaminade, A. Colard, and S. Aulard
Organization of the sex-ratio Meiotic Drive Region in Drosophila simulans
Genetics, November 1, 2006; 174(3): 1365 - 1371.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
S. Polaski, L. Whitney, B. W. Barker, and B. Stronach
Genetic Analysis of Slipper/Mixed Lineage Kinase Reveals Requirements in Multiple Jun-N-Terminal Kinase-Dependent Morphogenetic Events During Drosophila Development
Genetics, October 1, 2006; 174(2): 719 - 733.
[Abstract] [Full Text] [PDF]

Home page
 J. Am. Med. Inform. Assoc.Home page
H. Liu, Z.-Z. Hu, M. Torii, C. Wu, and C. Friedman
Quantitative Assessment of Dictionary-based Protein Named Entity Tagging
J. Am. Med. Inform. Assoc., September 1, 2006; 13(5): 497 - 507.
[Abstract] [Full Text] [PDF]

Home page
 GlycobiologyHome page
F. Cattaneo, M. E. Pasini, J. Intra, M. Matsumoto, F. Briani, M. Hoshi, and M. E. Perotti
Identification and expression analysis of Drosophila melanogaster genes encoding {beta}-hexosaminidases of the sperm plasma membrane
Glycobiology, September 1, 2006; 16(9): 786 - 800.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
W.-Y. Ko, S. Piao, and H. Akashi
Strong Regional Heterogeneity in Base Composition Evolution on the Drosophila X Chromosome
Genetics, September 1, 2006; 174(1): 349 - 362.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
K. W. Jordan, T. J. Morgan, and T. F. C. Mackay
Quantitative Trait Loci for Locomotor Behavior in Drosophila melanogaster
Genetics, September 1, 2006; 174(1): 271 - 284.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
M. E. Gelsthorpe, Z. Tan, A. Phillips, J. C. Eissenberg, A. Miller, J. Wallace, and S. I. Tsubota
Regulation of the Drosophila melanogaster Protein, Enhancer of Rudimentary, by Casein Kinase II
Genetics, September 1, 2006; 174(1): 265 - 270.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
T. S. V. Liao, G. B. Call, P. Guptan, A. Cespedes, J. Marshall, K. Yackle, E. Owusu-Ansah, S. Mandal, Q. A. Fang, G. L. Goodstein, et al.
An Efficient Genetic Screen in Drosophila to Identify Nuclear-Encoded Genes With Mitochondrial Function
Genetics, September 1, 2006; 174(1): 525 - 533.
[Abstract] [Full Text] [PDF]

Home page
 DevelopmentHome page
R. T. Cox and A. C. Spradling
Milton controls the early acquisition of mitochondria by Drosophila oocytes
Development, September 1, 2006; 133(17): 3371 - 3377.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
W. Haerty and R. S. Singh
Gene Regulation Divergence Is a Major Contributor to the Evolution of Dobzhansky-Muller Incompatibilities between Species of Drosophila
Mol. Biol. Evol., September 1, 2006; 23(9): 1707 - 1714.
[Abstract] [Full Text] [PDF]

Home page
 J. Neurosci.Home page
D. S. Hekmat-Scafe, M. Y. Lundy, R. Ranga, and M. A. Tanouye
Mutations in the K+/Cl- Cotransporter Gene kazachoc (kcc) Increase Seizure Susceptibility in Drosophila.
J. Neurosci., August 30, 2006; 26(35): 8943 - 8954.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
S. Dorner, L. Lum, M. Kim, R. Paro, P. A. Beachy, and R. Green
A genomewide screen for components of the RNAi pathway in Drosophila cultured cells
PNAS, August 8, 2006; 103(32): 11880 - 11885.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
D. M. Johnson-Schlitz and W. R. Engels
The Effect of Gap Length on Double-Strand Break Repair in Drosophila
Genetics, August 1, 2006; 173(4): 2033 - 2038.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Zhang, X. S. Liu, Q.-R. Liu, and L. Wei
Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species
Nucleic Acids Res., July 18, 2006; 34(12): 3465 - 3475.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
J. Hollien and J. S. Weissman
Decay of endoplasmic reticulum-localized mRNAs during the unfolded protein response.
Science, July 7, 2006; 313(5783): 104 - 107.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
P. J. Neuburger, K. J. Saville, J. Zeng, K.-A. Smyth, and J. M. Belote
A Genetic Suppressor of Two Dominant Temperature-Sensitive Lethal Proteasome Mutants of Drosophila melanogaster Is Itself a Mutated Proteasome Subunit Gene
Genetics, July 1, 2006; 173(3): 1377 - 1387.
[Abstract] [Full Text] [PDF]

Home page
 DevelopmentHome page
Y. Mao, C. Rauskolb, E. Cho, W.-L. Hu, H. Hayter, G. Minihan, F. N. Katz, and K. D. Irvine
Dachs: an unconventional myosin that functions downstream of Fat to regulate growth, affinity and gene expression in Drosophila
Development, July 1, 2006; 133(13): 2539 - 2551.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
M. Beller, D. Riedel, L. Jansch, G. Dieterich, J. Wehland, H. Jackle, and R. P. Kuhnlein
Characterization of the Drosophila Lipid Droplet Subproteome
Mol. Cell. Proteomics, June 1, 2006; 5(6): 1082 - 1094.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
M. Sarkar, P. A. Leventis, C. I. Silvescu, V. N. Reinhold, H. Schachter, and G. L. Boulianne
Null Mutations in Drosophila N-Acetylglucosaminyltransferase I Produce Defects in Locomotion and a Reduced Life Span
J. Biol. Chem., May 5, 2006; 281(18): 12776 - 12785.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
A. J. Moehring, A. Llopart, S. Elwyn, J. A. Coyne, and T. F. C. Mackay
The Genetic Basis of Postzygotic Reproductive Isolation Between Drosophila santomea and D. yakuba Due to Hybrid Male Sterility
Genetics, May 1, 2006; 173(1): 225 - 233.
[Abstract] [Full Text] [PDF]

Home page
 J. Cell Biol.Home page
U. Acharya, M. B. Edwards, R. A. Jorquera, H. Silva, K. Nagashima, P. Labarca, and J. K. Acharya
Drosophila melanogaster Scramblases modulate synaptic transmission.
J. Cell Biol., April 10, 2006; 173(1): 69 - 82.
[Abstract] [Full Text] [PDF]

Home page
 Brief Funct Genomic ProteomicHome page
J. G. Gindhart
Towards an understanding of kinesin-1 dependent transport pathways through the study of protein-protein interactions
Brief Funct Genomic Proteomic, March 1, 2006; 5(1): 74 - 86.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
S. Bandyopadhyay, R. Sharan, and T. Ideker
Systematic identification of functional orthologs based on protein network comparison
Genome Res., March 1, 2006; 16(3): 428 - 435.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
J. M. Rawls Jr.
Analysis of Pyrimidine Catabolism in Drosophila melanogaster Using Epistatic Interactions With Mutations of Pyrimidine Biosynthesis and {beta}-Alanine Metabolism
Genetics, March 1, 2006; 172(3): 1665 - 1674.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
T. Mukherjee, U. Schafer, and M. P. Zeidler
Identification of Drosophila Genes Modulating Janus Kinase/Signal Transducer and Activator of Transcription Signal Transduction
Genetics, March 1, 2006; 172(3): 1683 - 1697.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
H. Akashi, W.-Y. Ko, S. Piao, A. John, P. Goel, C.-F. Lin, and A. P. Vitins
Molecular Evolution in the Drosophila melanogaster Species Subgroup: Frequent Parameter Fluctuations on the Timescale of Molecular Divergence
Genetics, March 1, 2006; 172(3): 1711 - 1726.
[Abstract] [Full Text] [PDF]

Home page
 Physiol. GenomicsHome page
S.-Y. Jiang and S. Ramachandran
Comparative and evolutionary analysis of genes encoding small GTPases and their activating proteins in eukaryotic genomes
Physiol Genomics, February 23, 2006; 24(3): 235 - 251.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
S. M. Gallo, L. Li, Z. Hu, and M. S. Halfon
REDfly: a Regulatory Element Database for Drosophila
Bioinformatics, February 1, 2006; 22(3): 381 - 383.
[Abstract] [Full Text] [PDF]

Home page
 GeneticsHome page
C. R. Preston, C. C. Flores, and W. R. Engels
Differential Usage of Alternative Pathways of Double-Strand Break Repair in Drosophila
Genetics, February 1, 2006; 172(2): 1055 - 1068.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. Tran, P. Havlak, and J. Miller
MicroRNA enrichment among short 'ultraconserved' sequences in insects.
Nucleic Acids Res., January 1, 2006; 34(9): e65 - e65.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
S. K. Kummerfeld and S. A. Teichmann
DBD: a transcription factor prediction database
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D74 - D81.
[Abstract] [Full Text]