Our ongoing and central goal is to produce experimental evidence, complete annotation, and a representative cDNA clone for every protein-coding gene in the Drosophila melanogaster genome. Further, we plan to continue our studies to characterize and annotate the extent of splice variation used to generate protein isoforms in D, melanogaster. At the Berkeley Drosophila Genome Project (BDGP) we have generated and sequenced a large set of expressed sequence tags (ESTs) that have given rise to the Drosophila Gene Collection (DGC). We propose to complete this unigene DGC. We plan to use a variety of methods including inverse PCR and RT-PCR to identify and isolate clones for rarely expressed genes. As a public resource, completeness is essential for functional studies of genes and their corresponding proteins. cDNA clones provide the best experimental evidence of transcription, transcript processing and gene structure. They are also a critical resource for proteomics directed at studying medically relevant classes of genes, kinases, transcription factors and receptors. Partial sets of clones are not adequate for comprehensive functional genomic studies. These studies will provide information and tools that will elucidate the complete transcriptome in Drosophila melanogaster, a prerequisite for understanding normal growth and differentiation and that will aid in understanding these processes in other organisms including humans. Drosophila models have been developed for Alzheimer and other neurodegenerative diseases and cancer. In addition, genes first identified to play a role in Drosophila development are often components of conserved regulatory networks that play important roles during animal development and have been found, in humans, to contribute to the development of a variety of human cancers. ? ? ?
| 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 |
| Noyes, Marcus B; Christensen, Ryan G; Wakabayashi, Atsuya et al. (2008) Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites. Cell 133:1277-89 |
| Noyes, Marcus B; Meng, Xiangdong; Wakabayashi, Atsuya et al. (2008) A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system. Nucleic Acids Res 36:2547-60 |
| Stapleton, Mark; Carlson, Joseph W; Celniker, Susan E (2006) RNA editing in Drosophila melanogaster: New targets and functional consequences. RNA 12:1922-32 |
| Wan, Kenneth H; Yu, Charles; George, Reed A et al. (2006) High-throughput plasmid cDNA library screening. Nat Protoc 1:624-32 |
| Chen, Li; Lullo, Dennis J; Ma, Enbo et al. (2005) Identification and analysis of U5 snRNA variants in Drosophila. RNA 11:1473-7 |
| Tupy, Jonathan L; Bailey, Adina M; Dailey, Gina et al. (2005) Identification of putative noncoding polyadenylated transcripts in Drosophila melanogaster. Proc Natl Acad Sci U S A 102:5495-500 |
| Hoskins, Roger A; Stapleton, Mark; George, Reed A et al. (2005) Rapid and efficient cDNA library screening by self-ligation of inverse PCR products (SLIP). Nucleic Acids Res 33:e185 |
