search archives and annnotate questions
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@kimpel-mark-w-727
Last seen 9.6 years ago
Why is it that so many probesets are annotated with respect to chromosome and cytoband, but not to "chromosome location" in the annotation packages? I recently performed an analysis using rat2302 (ver.1.12.0) and passed the results on to a colleague, who subsequently told me that he has found locations for quite a few of the probesets with location "zero" at the Affy website. I tried to see if this question has been addressed before but ran into the following problems: 1. the search button on the Bioconductor homepage is not working (Firefox 1.5.1). 2. the searchable archives site I used to use has been shut down (http://files.protsuggest.org/cgi-bin/biocond.cgi). 3. I am not sure how to Goggle just the BioC archives (https://stat.ethz.ch/pipermail/bioconductor/). Help in these areas would be appreciated. Thanks, Mark W. Kimpel MD ? Official Business Address: ? Department of Psychiatry Indiana University School of Medicine Biotechnology, Research, & Training Center 1345 W. 16th Street Indianapolis, IN ?46202 ? Preferred Mailing Address: ? 15032 Hunter Court Westfield, IN? 46074 ? (317) 490-5129 Home, Work, & Mobile 1-(317)-536-2730 FAX
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@james-w-macdonald-5106
Last seen 16 hours ago
United States
Kimpel, Mark William wrote: > Why is it that so many probesets are annotated with respect to > chromosome and cytoband, but not to "chromosome location" in the > annotation packages? I recently performed an analysis using rat2302 > (ver.1.12.0) and passed the results on to a colleague, who > subsequently told me that he has found locations for quite a few of > the probesets with location "zero" at the Affy website. > > I tried to see if this question has been addressed before but ran > into the following problems: 1. the search button on the Bioconductor > homepage is not working (Firefox 1.5.1). 2. the searchable archives > site I used to use has been shut down > (http://files.protsuggest.org/cgi-bin/biocond.cgi). 3. I am not sure > how to Goggle just the BioC archives > (https://stat.ethz.ch/pipermail/bioconductor/). Search functionality is now provided via gmane. http://dir.gmane.org/gmane.science.biology.informatics.conductor Best, Jim > > Help in these areas would be appreciated. > > Thanks, > > Mark W. Kimpel MD > > > Official Business Address: > > Department of Psychiatry Indiana University School of Medicine > Biotechnology, Research, & Training Center 1345 W. 16th Street > Indianapolis, IN 46202 > > Preferred Mailing Address: > > 15032 Hunter Court Westfield, IN 46074 > > (317) 490-5129 Home, Work, & Mobile 1-(317)-536-2730 FAX > > _______________________________________________ Bioconductor mailing > list Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor Search the > archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.
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@kimpel-mark-w-727
Last seen 9.6 years ago
Thanks Jim. Would it be appropriate to put this link on the BioC homepage? Mark Mark W. Kimpel MD (317) 490-5129 Home, Work, & Mobile 1-(317)-536-2730 FAX -----Original Message----- From: James W. MacDonald [mailto:jmacdon@med.umich.edu] Sent: Monday, May 08, 2006 12:05 PM To: Kimpel, Mark William Cc: Bioconductor Newsgroup Subject: Re: [BioC] search archives and annnotate questions Kimpel, Mark William wrote: > Why is it that so many probesets are annotated with respect to > chromosome and cytoband, but not to "chromosome location" in the > annotation packages? I recently performed an analysis using rat2302 > (ver.1.12.0) and passed the results on to a colleague, who > subsequently told me that he has found locations for quite a few of > the probesets with location "zero" at the Affy website. > > I tried to see if this question has been addressed before but ran > into the following problems: 1. the search button on the Bioconductor > homepage is not working (Firefox 1.5.1). 2. the searchable archives > site I used to use has been shut down > (http://files.protsuggest.org/cgi-bin/biocond.cgi). 3. I am not sure > how to Goggle just the BioC archives > (https://stat.ethz.ch/pipermail/bioconductor/). Search functionality is now provided via gmane. http://dir.gmane.org/gmane.science.biology.informatics.conductor Best, Jim > > Help in these areas would be appreciated. > > Thanks, > > Mark W. Kimpel MD > > > Official Business Address: > > Department of Psychiatry Indiana University School of Medicine > Biotechnology, Research, & Training Center 1345 W. 16th Street > Indianapolis, IN 46202 > > Preferred Mailing Address: > > 15032 Hunter Court Westfield, IN 46074 > > (317) 490-5129 Home, Work, & Mobile 1-(317)-536-2730 FAX > > _______________________________________________ Bioconductor mailing > list Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor Search the > archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.
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Kimpel, Mark William wrote: > Thanks Jim. Would it be appropriate to put this link on the BioC > homepage? It is. Click on 'Join mailing list' on the left hand of the home page, and then the 'Searchable mail archives' link at the bottom. OK, technically not the home page, but one link off of it ;-D. Best, Jim > > Mark > > Mark W. Kimpel MD > > > > (317) 490-5129 Home, Work, & Mobile > > 1-(317)-536-2730 FAX > > -----Original Message----- > From: James W. MacDonald [mailto:jmacdon at med.umich.edu] > Sent: Monday, May 08, 2006 12:05 PM > To: Kimpel, Mark William > Cc: Bioconductor Newsgroup > Subject: Re: [BioC] search archives and annnotate questions > > Kimpel, Mark William wrote: > >>Why is it that so many probesets are annotated with respect to >>chromosome and cytoband, but not to "chromosome location" in the >>annotation packages? I recently performed an analysis using rat2302 >>(ver.1.12.0) and passed the results on to a colleague, who >>subsequently told me that he has found locations for quite a few of >>the probesets with location "zero" at the Affy website. >> >>I tried to see if this question has been addressed before but ran >>into the following problems: 1. the search button on the Bioconductor >>homepage is not working (Firefox 1.5.1). 2. the searchable archives >>site I used to use has been shut down >>(http://files.protsuggest.org/cgi-bin/biocond.cgi). 3. I am not sure >>how to Goggle just the BioC archives >>(https://stat.ethz.ch/pipermail/bioconductor/). > > > Search functionality is now provided via gmane. > > http://dir.gmane.org/gmane.science.biology.informatics.conductor > > Best, > > Jim > > > >>Help in these areas would be appreciated. >> >>Thanks, >> >>Mark W. Kimpel MD >> >> >>Official Business Address: >> >>Department of Psychiatry Indiana University School of Medicine >>Biotechnology, Research, & Training Center 1345 W. 16th Street >>Indianapolis, IN 46202 >> >>Preferred Mailing Address: >> >>15032 Hunter Court Westfield, IN 46074 >> >>(317) 490-5129 Home, Work, & Mobile 1-(317)-536-2730 FAX >> >>_______________________________________________ Bioconductor mailing >>list Bioconductor at stat.math.ethz.ch >>https://stat.ethz.ch/mailman/listinfo/bioconductor Search the >>archives: >>http://news.gmane.org/gmane.science.biology.informatics.conductor > > > -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.
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