English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome

Hild, M., Beckmann, B., Haas, S. A., Koch, B., Solovyev, V., Busold, C., et al. (2003). An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome. Genome Biology, 5(1), R3-R3. doi:10.1186/gb-2003-5-1-r3.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-894A-3 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-894B-1
Genre: Journal Article
Alternative Title : Genome Biol.

Files

show Files

Locators

show

Creators

show
hide
 Creators:
Hild, M., Author
Beckmann, B., Author
Haas, Stefan. A.1, Author
Koch, B., Author
Solovyev, V., Author
Busold, C., Author
Fellenberg, K., Author
Boutros, M., Author
Vingron, Martin2, Author              
Sauer, F., Author
Hoheisel, J. D., Author
Paro, R., Author
Affiliations:
1Max Planck Society, ou_persistent13              
2Gene regulation (Martin Vingron), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479639              

Content

show
hide
Free keywords: Genome studies, Model organisms, Bioinformatics, Development
 Abstract: Background While the genome sequences for a variety of organisms are now available, the precise number of the genes encoded is still a matter of debate. For the human genome several stringent annotation approaches have resulted in the same number of potential genes, but a careful comparison revealed only limited overlap. This indicates that only the combination of different computational prediction methods and experimental evaluation of such in silico data will provide more complete genome annotations. In order to get a more complete gene content of the Drosophila melanogaster genome, we based our new D. melanogaster whole-transcriptome microarray, the Heidelberg FlyArray, on the combination of the Berkeley Drosophila Genome Project (BDGP) annotation and a novel ab initio gene prediction of lower stringency using the Fgenesh software. Results Here we provide evidence for the transcription of approximately 2,600 additional genes predicted by Fgenesh. Validation of the developmental profiling data by RT-PCR and in situ hybridization indicates a lower limit of 2,000 novel annotations, thus substantially raising the number of genes that make a fly. Conclusions The successful design and application of this novel Drosophila microarray on the basis of our integrated in silico/wet biology approach confirms our expectation that in silico approaches alone will always tend to be incomplete. The identification of at least 2,000 novel genes highlights the importance of gathering experimental evidence to discover all genes within a genome. Moreover, as such an approach is independent of homology criteria, it will allow the discovery of novel genes unrelated to known protein families or those that have not been strictly conserved between species.

Details

show
hide
Language(s): eng - English
 Dates: 2003-12-22
 Publication Status: Published in print
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: -
 Identifiers: eDoc: 173950
ISI: 000187747000009
DOI: 10.1186/gb-2003-5-1-r3
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: Genome Biology
  Alternative Title : Genome Biol.
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: -
Pages: - Volume / Issue: 5 (1) Sequence Number: - Start / End Page: R3 - R3 Identifier: ISSN: 1465-6914