Abstract

This is the second competitive renewal of the Drosophila Genome Center. The major aim for the three years covered by this proposal is to complete the determination of the genomic sequence of the 12 Mb euchromatic portion of the Drosophila melanogaster genome. The biologically-annotated sequences of the genomes of the model organisms will provide an invaluable key to understanding the sequence of the human genome. An important goal of the Drosophila Genome Center is to facilitate this endeavor. To that end we proposed to develop a detailed genome-wide biological underpinning to the DNA sequence data as it emerges. Our work in this area has three components: (1) the use of P-element-mediated insertional mutagenesis to conduct a gene disruption experiment of unprecedented scale in a metazoan organism; (2) the study of expressed sequences through the characterization of the sequence and expression pattern of cDNA molecules; and (3) the development of informatics tools to support the experimental process, to identify features of the DNA sequence, and to allow the presentation of up-to-date information on the annotated sequence to the world-wide research community.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Specialized Center (P50)
Project #
5P50HG000750-09
Application #
6322366
Study Section
Ethical, Legal, Social Implications Review Committee (GNOM)
Program Officer
Felsenfeld, Adam
Project Start
1992-08-01
Project End
2002-11-30
Budget Start
2000-12-03
Budget End
2001-11-30
Support Year
9
Fiscal Year
2001
Total Cost
$6,933,000
Indirect Cost

  Institution

Name
University of California Berkeley
Department
Biochemistry
Type
Schools of Arts and Sciences
DUNS #
094878337
City
Berkeley
State
CA
Country
United States
Zip Code
94704

  Publications

Hoskins, Roger A; Carlson, Joseph W; Wan, Kenneth H et al. (2015) The Release 6 reference sequence of the Drosophila melanogaster genome. Genome Res 25:445-58
Hoskins, Roger A; Carlson, Joseph W; Kennedy, Cameron et al. (2007) Sequence finishing and mapping of Drosophila melanogaster heterochromatin. Science 316:1625-8
Tomancak, Pavel; Berman, Benjamin P; Beaton, Amy et al. (2007) Global analysis of patterns of gene expression during Drosophila embryogenesis. Genome Biol 8:R145
Osoegawa, Kazutoyo; Vessere, Gery M; Li Shu, Chung et al. (2007) BAC clones generated from sheared DNA. Genomics 89:291-9
Yandell, Mark; Mungall, Chris J; Smith, Chris et al. (2006) Large-scale trends in the evolution of gene structures within 11 animal genomes. PLoS Comput Biol 2:e15
George, Janet A; DeBaryshe, P Gregory; Traverse, Karen L et al. (2006) Genomic organization of the Drosophila telomere retrotransposable elements. Genome Res 16:1231-40
Bergman, Casey M; Carlson, Joseph W; Celniker, Susan E (2005) Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster. Bioinformatics 21:1747-9
Pollard, Daniel A; Bergman, Casey M; Stoye, Jens et al. (2004) Benchmarking tools for the alignment of functional noncoding DNA. BMC Bioinformatics 5:6
Berman, Benjamin P; Pfeiffer, Barret D; Laverty, Todd R et al. (2004) Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura. Genome Biol 5:R61
Harbison, Susan T; Yamamoto, Akihiko H; Fanara, Juan J et al. (2004) Quantitative trait loci affecting starvation resistance in Drosophila melanogaster. Genetics 166:1807-23

Showing the most recent 10 out of 49 publications