Difference between revisions of "Contacting the Community"
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Dear Dr. <name> | Dear Dr. <name> | ||
− | In an effort to keep | + | In an effort to keep the gene descriptions in WormBase updated, we are requesting your assistance to either update an existing gene description or write a new description when none exists, based on your publication: |
− | + | ||
+ | Leight ER, Murphy JT, Fantz DA, Pepin D, Schneider DL, Ratliff TM, Mohammad | ||
+ | DH, Herman MA, Kornfeld K. Conversion of the LIN-1 ETS protein of | ||
+ | Caenorhabditis elegans from a SUMOylated transcriptional repressor to a | ||
+ | phosphorylated transcriptional activator. Genetics. 2015 | ||
+ | Mar;199(3):761-75. doi: 10.1534/genetics.114.172668. Epub 2015 Jan 7. | ||
+ | PubMed PMID: 25567989 | ||
+ | |||
+ | |||
+ | Gene descriptions appear in the 'Overview' widget on WormBase gene pages. We would greatly appreciate if you, or any of the other authors, could take a moment to update the gene description for <gene> using our simple web-based tool: | ||
− | |||
http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/community_gene_description.cgi | http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/community_gene_description.cgi | ||
− | Thank | + | If you have any questions, comments or concerns, please let us know. |
− | WormBase | + | |
+ | Thank you so much! | ||
+ | |||
+ | Best regards, | ||
+ | The WormBase Gene Description Team | ||
</pre> | </pre> | ||
Revision as of 17:26, 7 October 2015
Contents
List of papers in WormBase
- This is the lsit of papers that come into WormBase, in real time, latest are at the bottom:
http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/generic.cgi?action=WpaXref
E-mailing the community
From Juancarlos: On tazendra, in this directory : /home/postgres/work/pgpopulation/concise_description/20150702_papgenes_after_lastupdate
- gene_to_published_after - has a set of WBGenes + locus + count of papers + list of papers with a gene connection after the gene's date last updated (unsorted, but if you copy the file to your machine and put it in excel or something like that, you can sort it)
- pis_to_papers_with_genes_published_after - has PIs sorted in descending order by count of papers that mention a gene that has a gene connection after the gene's date last updated. So, possibly some papers have multiple genes, but are counted just once.
- This script takes some 40 minutes to run, because we're taking the date last updated, then for each of the 138056 doing a separate query to get paper-gene connections with a timestamp after that. So if we keep working on this script, it'd be kind-of-good to work out what we want since it takes so (relatively) long to run.
- Chris has a similar list for newmutant-flagged papers that still need curation, so you can both talk about what you want to do next.
Letter for e-mail for Community Annotation
Dear Dr. <name> In an effort to keep the gene descriptions in WormBase updated, we are requesting your assistance to either update an existing gene description or write a new description when none exists, based on your publication: Leight ER, Murphy JT, Fantz DA, Pepin D, Schneider DL, Ratliff TM, Mohammad DH, Herman MA, Kornfeld K. Conversion of the LIN-1 ETS protein of Caenorhabditis elegans from a SUMOylated transcriptional repressor to a phosphorylated transcriptional activator. Genetics. 2015 Mar;199(3):761-75. doi: 10.1534/genetics.114.172668. Epub 2015 Jan 7. PubMed PMID: 25567989 Gene descriptions appear in the 'Overview' widget on WormBase gene pages. We would greatly appreciate if you, or any of the other authors, could take a moment to update the gene description for <gene> using our simple web-based tool: http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/community_gene_description.cgi If you have any questions, comments or concerns, please let us know. Thank you so much! Best regards, The WormBase Gene Description Team
Letter for allele-phenotype requests
Subject: Contribute phenotype data to WormBase: Leight et al (2015) Genetics From: "Christian A Grove" <cgrove@caltech.edu> Date: Mon, October 5, 2015 1:19 pm To: kornfeld@wustl.edu -------------------------------------------------------------------------- Dear Kerry Kornfeld, In an effort to improve WormBase's coverage of allele-based phenotypes, WormBase is requesting your assistance to annotate mutant allele phenotypes from your paper: Leight ER, Murphy JT, Fantz DA, Pepin D, Schneider DL, Ratliff TM, Mohammad DH, Herman MA, Kornfeld K. Conversion of the LIN-1 ETS protein of Caenorhabditis elegans from a SUMOylated transcriptional repressor to a phosphorylated transcriptional activator. Genetics. 2015 Mar;199(3):761-75. doi: 10.1534/genetics.114.172668. Epub 2015 Jan 7. PubMed PMID: 25567989 We would greatly appreciate if you, or any of the other authors, could take a moment to contribute allele-phenotype connections using our simple web-based tool: http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/allele_phenotype.cgi If you have any questions, comments or concerns, please let us know. Thank you so much! Best regards, The WormBase Phenotype Team