Hello, Is there a Bioconductor solution to Medline mining? Say, for a given set of affy identifiers, find gene names, their synonyms, and the pubmed count of abstracts cooccurring with a given keyword (such as a disease name)? If not available in Bioconductor, is any other tool available for this? Searches in bioinformatic journals yield only old tools which (for the most part) have dead urls. Thanks, Michael

Hi Rohit You might also want to try 'pumaPCA' from the 'puma' package. It works on an 'ExpressionSet' object created using mmgmos (also in puma). This allows you to use uncertainty information as well as point estimates of expression levels, and can be helpful in many situations. It is more compute intensive than prcomp or princomp though! See puma vignette for further details Cheers Richard Cristobal Fresno Rodr?guez wrote: > Rohit, I would try ?prcomp or ?princomp from the stats package. > Hope it works for you, > Cristobal > > 2010/4/14 Rohit Farmer <rohit.farmer at="" gmail.com=""> > >> Hello everyone ... >> >> I am using affymetrix data and want to do PCA using bioconductor ... >> is there any package or library available which i can use to perform >> the same ... >> >> Thanks >> >> Rohit >> >> -- >> Rohit Farmer >> M.Tech Bioinformatics >> Department of Computational Biology and Bioinformatics >> Jacob School of Biengineering and Biotechnology >> Sam Higginbottom Institute of Agriculture, Technology and Sciences >> (Formerly known as Allahabad Agricultural Institute - Deemed University) >> Allahabad, UP, INDIA - 211 007 >> Ph. No. 9839845093, 9415261403 >> e-Mail rohit.farmer at gmail.com >> Blog http://rohitsspace.blogspot.com >> >> _______________________________________________ >> 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 >> > > [[alternative HTML version deleted]] > > _______________________________________________ > 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 > -- Dr Richard D Pearson richard.pearson at well.ox.ac.uk Wellcome Trust Centre for Human Genetics http://www.well.ox.ac.uk/~rpearson University of Oxford Tel: +44 (0)1865 617890 Roosevelt Drive Mob: +44 (0)7971 221181 Oxford OX3 7BN, UK Fax: +44 (0)1865 287664