- Genome Status
3D reconstructed images of the F-actin contractile ring
Did You Know ... ?
PomBase has several types of documentation and help to assist you in finding data, using tools and features, and more. The main Documentation page provides a convenient overview of the documentation available for PomBase gene pages, searches, and other features, as well as resources available as part of the Ensembl Genomes project. "Help" links throughout the gene pages link to relevant portions of the documentation. We also maintain a list of Frequently Asked Questions (FAQ).
If you can't find what you need in the documentation or FAQ, you can ask about anything via the PomBase Helpdesk: go to the web form or email firstname.lastname@example.org. We also welcome suggestions that will improve or extend PomBase documentation.
Friday, 18th Jul, 2014
We have updated the data available on the PomBase web site to include manual curation through July 8, 2014. The gene pages also now display protein modification data from an additional large-scale dataset:
Koch A, Krug K, Pengelley S, Macek B, Hauf S. 2011. Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast. Sci Signal. 4(179): rs6 doi: 10.1126/scisignal.2001588 PMID:21712547
We have also made corrections to some residue positions affected by sequence updates in one of the modification datasets we added last month:
Carpy A, Krug K, Graf S, Koch A, Popic S, Hauf S, Macek B. 2014....
Wednesday, 9th Jul, 2014
We have updated the data available on the PomBase web site. The data now includes manual curation through June 6, 2014. In other improvements, a downloadable file of intron sequence data (FASTA format) is now available, and phenotypes are now included in the Target Of section on gene pages.
The gene pages also now display protein modification data from two large-scale datasets:
- Wilson-Grady JT, Villén J, Gygi SP. 2008 .Phosphoproteome analysis of fission yeast. J Proteome Res. 2008 Mar;7(3):1088-97. doi:10.1021/pr7006335. PMID:18257517
- Carpy A, Krug K, Graf S, Koch A, Popic S, Hauf...
Monday, 30th Jun, 2014
PomBase was an early adopter of annotation extensions, which add spatial, temporal, or substrate/target details to GO annotations. The GO Consortium has now published a paper describing its implementation of annotation extensions, in which PomBase examples and its gene page display figure prominently:
Huntley, R.P. et al. (2014) A method for increasing expressivity of Gene Ontology annotations using a compositional approach. BMC Bioinformatics 2014, 15:155. doi:10.1186/1471-2105-15-155 PMID:24885854