Peng Yu, Marie Wong at Lilly Systems Biology researched this exact question back in 2006. I've copied her on this reply so that she might be able to advise you on what she found.
Marie's original discussion thread on the Ensembl mailing lists can be found here: http://osdir.com/ml/science.biology.ensembl.devel/2006-06/msg00090.html cheers, Richard On 30 Nov 2009, at 22:19, Peng Yu wrote: > It seems to me that ensembl (supported by biomart, if I understand it > correctly) has similar functionality to ucsc genome browser. Could > somebody let me know the pros and cons of each tools and when I should > use which tools? > > UCSC genome browser provide mysql database access and processed > datafiles. Biomart also provides queries. Could somebody also compare > them so that I choose the more appropriate one for any give task that > is at my hand. -- Richard Holland, BSc MBCS Operations and Delivery Director, Eagle Genomics Ltd T: +44 (0)1223 654481 ext 3 | E: [email protected] http://www.eaglegenomics.com/
