<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Dear Nathalie,<div><br></div><div>we import data from DGVa for mouse already:</div><div><a href="http://www.ensembl.org/info/genome/variation/sources_documentation.html#mus_musculus">http://www.ensembl.org/info/genome/variation/sources_documentation.html#mus_musculus</a></div><div><br></div><div>I will check the Phenotype and QTL data provided by MGI and let you know if decide to import the data for our next releases.</div><div><br></div><div>Thank you for pointing out the data sources. I'll keep you updated.</div><div><br></div><div>Kind regards,</div><div>Anja</div><div><br><div><div>On 24 Jul 2014, at 16:56, <a href="mailto:nconte@ebi.ac.uk">nconte@ebi.ac.uk</a> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Thanks<br>Any plans to get more data in soon like<br>dbSNP dGVA MGI?<br>BW,<br>Nathalie<br><br><blockquote type="cite">Hi Nathalie,<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">we have phenotype data from EuroPhenome and MGP. You can find more about<br></blockquote><blockquote type="cite">the sources here:<br></blockquote><blockquote type="cite"><a href="http://www.ensembl.org/info/genome/variation/sources_documentation.html#mus_musculus">http://www.ensembl.org/info/genome/variation/sources_documentation.html#mus_musculus</a><br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">We have only gene associated phenotypes for mouse.<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Thanks,<br></blockquote><blockquote type="cite">Anja<br></blockquote><blockquote type="cite">On 24 Jul 2014, at 15:40, Nathalie Conte wrote:<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite"><blockquote type="cite">Hi Anja, I have successfully retrieved phenotypes with fetch_all_by<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">_gene method.<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">I am retrieving so far data from MGP with KO gene - is there any other<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">data sources for mouse phenotypes, what about variation phenotypes ?<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">script<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">my $pfs = $pf_adaptor->fetch_all_by_Gene($gene);<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">if ( scalar(@$pfs)== 0 ){print "no PHE\n";}else{<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">foreach my $pm(@{$pfs}){ if ($pm){<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">print "\t",<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">$pm->allele_symbol,"\t",$pm->source,"\t",$pm->phenotype->description,<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">"\n";<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">}else {next;}<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">Thanks<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">N<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite">On 23 Jul 2014, at 16:52, Anja Thormann <<a href="mailto:anja@ebi.ac.uk">anja@ebi.ac.uk</a>> wrote:<br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Hello Nathalie,<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">we have only genes associated with phenotypes for mouse. You need to<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">use fetch_all_by_Gene.<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Kind regards,<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Anja<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">On 23 Jul 2014, at 16:46, Nathalie Conte wrote:<br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Hi ,<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Is there mouse phenotypes available through the ensembl API ?<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">I am trying to retrieve mouse phenotypes from the API using the<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">phenotype feature adaptor =<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Bio::EnsEMBL::Registry->get_adaptor('mouse', 'variation',<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">'phenotypefeature'),<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">using fetch_all_by_Variation method, and cannot retrieve any -<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Please advise,<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Thanks,<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote type="cite"><blockquote type="cite">Nathalie<br></blockquote></blockquote></blockquote></blockquote><blockquote type="cite"><blockquote type="cite"><blockquote 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