Hi Claire, To get more information on the ESTs you can use the following table. Important is the beginning of the names: LQ0AAA... => sporophyte immature non-normalised LQ0AAB... => sporophyte immature normalised LQ0ABA... => stress (cloneminer) LQ0ACA... => gametophyte immature LQ0ADA... => gametophyte immature LQ0AEA... => sporophyte mature LQ0AFA... => gametophyte mature LQ0AGA... => stress (SMART) I've also posted this info on the wiki! kind regards, lieven Claire Gachon wrote:
Hello,
I have just started to annotate the Ectocarpus genome, and I have a few comments / suggestions. Please be indulgent if they are stupid, I have just started a few hours ago!
1. PubMed ID: limited to 2 references, could this be expanded to 4 or 5 (especially useful if annotating according to orthologues from other phyla)?
2. Protein homologs: 2.a. How are the proteins ordered? Is the first one the best BLAST hit? 2.b View BLAST: works when the database is NCBI, not when it is Straminopiles (local database?)
3. ESTs: is there a way of knowing from which library (gametophyte, sporophyte, stress...) they come?
Cheers, Claire
Dr Claire GACHON Scottish Association for Marine Science Dunstaffnage Marine Laboratory PA37 1QA Oban United Kingdom claire.gachon@sams.ac.uk Tel: 0044 16 31 559 318 Fax 0044 16 31 559 001 http://www.sams.ac.uk/ http://www.sams.ac.uk/research/departments/microbial-molecular/mmb-project-t...
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-- ============================================================== Lieven Sterck Predoctoral fellow Tel:+32 (0)9 3313821 Fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, UGent Bioinformatics and Evolutionary Genomics Division Technologiepark 927, B-9052 Gent, Belgium Email: lieven.sterck@psb.ugent.be Website: http://bioinformatics.psb.ugent.be -------------------------------------------------------------- Algal Genetics Group UMR 7139 CNRS-UPMC Végétaux Marins et Biomolécules (Marine Plants and Biomolecules) Station Biologique Place Georges Teissier, BP74 29682 Roscoff Cedex, France Website: http://www.sb-roscoff.fr/UMR7139/en/genetics.html ==============================================================