Date: Fri, 12 Oct 2012 09:02:16 -0700 (PDT) From: Hardeep <hardeepk...@yahoo.ca> To: psicquic@googlegroups.com Message-Id: <38c5a889-1455-4b91-842f-48f2e38d0869@googlegroups.com> In-Reply-To: <CABH4q1-no8cHDh2_OUzZzwDwT68+d=DgPzN2RrbSVx=z4_ff+Q@mail.gmail.com> References: <e0bf59d7-7463-4bba-8d94-a3dd8f51387b@googlegroups.com> <50777FBF.2070808@mbi.ucla.edu> <CABH4q1-no8cHDh2_OUzZzwDwT68+d=DgPzN2RrbSVx=z4_ff+Q@mail.gmail.com> Subject: Re: [psicquic] New PSICQUIC webservice MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="----=_Part_574_11550505.1350057736684" ------=_Part_574_11550505.1350057736684 Content-Type: multipart/alternative; boundary="----=_Part_575_16956908.1350057736684" ------=_Part_575_16956908.1350057736684 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 7bit Hi Lukasz and Rafael, Thanks for the recommendations. I'm happy to address the suggestions you mentioned. I'll keep you posted. best, Hardeep On Friday, 12 October 2012 09:06:29 UTC-4, Rafael C. Jimenez wrote: > > Hi Hardeep, > > Great job! ... sure the community will value to have a new PSICQUIC > service providing a comprehensive source of molecular interactions for > Arabidopsis. > > As Lukasz suggested there are some things might need clarification or > improvement. A good place to start is the Data Distribution Best Practises > guideline: > http://code.google.com/p/psicquic/wiki/DataDistributionBestPractices > > I would recommend you to make changes to your service following this > guideline. Afterwards I will be very happy to have a look to your PSICQUIC > service and include it in the registry. > > Best regards, > Rafael. > > > On 12 October 2012 03:26, Lukasz Salwinski <luk...@mbi.ucla.edu<javascript:> > > wrote: > >> On 10/11/2012 02:32 PM, Hardeep wrote: >> >>> Hello, >>> >>> I would like to announce a new webservice developed at the BAR >>> (http://bar.utoronto.ca). The webservice queries a protein-protein >>> interaction database which consists of more than 70944 predicted >>> interactions and 28556 confirmed Arabidopsis interactions. >>> >>> The webservice can be accessed here: >>> >>> http://bar.utoronto.ca:9090/**psicquic/webservices<http://bar.utoronto.ca:9090/psicquic/webservices> >>> and >>> http://bar.utoronto.ca:9090/**psicquic/webservices/current/** >>> search/query/At1g10930?**firstResult=0&maxResult=10<http://bar.utoronto.ca:9090/psicquic/webservices/current/search/query/At1g10930?firstResult=0&maxResult=10> >>> >>> I would like to add the webservice to the PSICQUIC Registry. But before I >>> do, I was wondering if I need to run it by someone in the PSICQUIC >>> community to ensure I am using the correct PSICQUIC Ontology/format, or >>> if >>> there are any recommendations/improvements that can be done before >>> PSICQUIC >>> users start using the webservice. >>> >>> thanks, >>> >>> Hardeep >>> University of Toronto >>> >> >> >> hmm... besides what looks like an overabundance of 'unknown' in the >> example you point to above - what do you mean by 'protein protein >> interaction' ? besides the columns providing gene/protein accessions, >> taxon id and the one (I'm guessing confidence value ?) consistently >> saying PCC:0.0 the server seems to provide no information about >> interaction type and experimental method used to infer it ? >> >> lukasz >> >> >> -- >> ------------------------------**------------------------------** >> ------------- >> Lukasz Salwinski PHONE: 310-825-1402 >> UCLA-DOE Institute for Genomics & Proteomics FAX: 310-206-3914 >> UCLA, Los Angeles EMAIL: luk...@mbi.ucla.edu<javascript:> >> ------------------------------**------------------------------** >> ------------- >> >> >> -- >> You received this message because you are subscribed to the Google >> Groups PSICQUIC group. >> To post to this group, send email to psic...@googlegroups.com<javascript:> >> To unsubscribe from this group, send email to >> psicquic+u...@**googlegroups.com <javascript:> >> >> http://psicquic.googlecode.com >> > > ------=_Part_575_16956908.1350057736684 Content-Type: text/html; charset=utf-8 Content-Transfer-Encoding: 7bit Hi Lukasz and Rafael,<br><br>Thanks for the recommendations. I'm happy to address the suggestions you mentioned. I'll keep you posted.<br><br>best,<br>Hardeep<br><br>On Friday, 12 October 2012 09:06:29 UTC-4, Rafael C. Jimenez wrote:<blockquote class="gmail_quote" style="margin: 0;margin-left: 0.8ex;border-left: 1px #ccc solid;padding-left: 1ex;">Hi Hardeep,<br><br>Great job! ... sure the community will value to have a new PSICQUIC service providing a comprehensive source of molecular interactions for Arabidopsis. <br><br>As Lukasz suggested there are some things might need clarification or improvement. A good place to start is the Data Distribution Best Practises guideline: <a href="http://code.google.com/p/psicquic/wiki/DataDistributionBestPractices" target="_blank">http://code.google.com/p/<wbr>psicquic/wiki/<wbr>DataDistributionBestPractices</a> <br> <br>I would recommend you to make changes to your service following this guideline. Afterwards I will be very happy to have a look to your PSICQUIC service and include it in the registry.<br><br>Best regards,<br>Rafael.<br> <br><br><div class="gmail_quote">On 12 October 2012 03:26, Lukasz Salwinski <span dir="ltr"><<a href="javascript:" target="_blank" gdf-obfuscated-mailto="qiIjoaw-6hcJ">luk...@mbi.ucla.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> <div>On 10/11/2012 02:32 PM, Hardeep wrote:<br> <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> Hello,<br> <br> I would like to announce a new webservice developed at the BAR<br> (<a href="http://bar.utoronto.ca" target="_blank">http://bar.utoronto.ca</a>). The webservice queries a protein-protein<br> interaction database which consists of more than 70944 predicted<br> interactions and 28556 confirmed Arabidopsis interactions.<br> <br> The webservice can be accessed here:<br> <br> <a href="http://bar.utoronto.ca:9090/psicquic/webservices" target="_blank">http://bar.utoronto.ca:9090/<u></u>ps<wbr>icquic/webservices</a><br> and<br> <a href="http://bar.utoronto.ca:9090/psicquic/webservices/current/search/query/At1g10930?firstResult=0&maxResult=10" target="_blank">http://bar.utoronto.ca:9090/<u></u>ps<wbr>icquic/webservices/current/<u></u>sea<wbr>rch/query/At1g10930?<u></u>firstResul<wbr>t=0&maxResult=10</a><br> <br> I would like to add the webservice to the PSICQUIC Registry. But before I<br> do, I was wondering if I need to run it by someone in the PSICQUIC<br> community to ensure I am using the correct PSICQUIC Ontology/format, or if<br> there are any recommendations/improvements that can be done before PSICQUIC<br> users start using the webservice.<br> <br> thanks,<br> <br> Hardeep<br> University of Toronto<br> </blockquote> <br> <br></div> hmm... besides what looks like an overabundance of 'unknown' in the<br> example you point to above - what do you mean by 'protein protein<br> interaction' ? besides the columns providing gene/protein accessions,<br> taxon id and the one (I'm guessing confidence value ?) consistently<br> saying PCC:0.0 the server seems to provide no information about<br> interaction type and experimental method used to infer it ?<span><font color="#888888"><br> <br> lukasz<br> <br> <br> -- <br> ------------------------------<u></u><wbr>------------------------------<u></u><wbr>-------------<br> Lukasz Salwinski PHONE: <a value="+13108251402">310-825-1402</a><br> UCLA-DOE Institute for Genomics & Proteomics FAX: <a value="+13102063914">310-206-3914</a><br> UCLA, Los Angeles EMAIL: <a href="javascript:" target="_blank" gdf-obfuscated-mailto="qiIjoaw-6hcJ">luk...@mbi.ucla.edu</a><br> ------------------------------<u></u><wbr>------------------------------<u></u><wbr>-------------</font></span><div><div><br> <br> -- <br> You received this message because you are subscribed to the Google<br> Groups PSICQUIC group.<br> To post to this group, send email to <a href="javascript:" target="_blank" gdf-obfuscated-mailto="qiIjoaw-6hcJ">psic...@googlegroups.com</a><br> To unsubscribe from this group, send email to<br> <a href="javascript:" target="_blank" gdf-obfuscated-mailto="qiIjoaw-6hcJ">psicquic+u...@<u></u>googlegro<wbr>ups.com</a><br> <br> <a href="http://psicquic.googlecode.com" target="_blank">http://psicquic.googlecode.com</a><br> </div></div></blockquote></div><br> </blockquote> ------=_Part_575_16956908.1350057736684-- ------=_Part_574_11550505.1350057736684--
Message from discussion New PSICQUIC webservice
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