Hi Pardis, Sorry for my delay in response! I'm glad you find the track useful. The method itself has never been published, so I think the best way to go would be to cite one of the genome browser papers, and maybe add in transfac too if you have room. Anyone else can feel free to chime in here though!
Matt On Thu, Mar 10, 2011 at 8:41 AM, Pardis Sabeti <[email protected]> wrote: > Dear Vanessa, > > It was not immediately obvious to me from the TFBS track credits section > what, if anything, I should cite. It says that the data was generated by a > Biobase program and created by Matt Weirauch and Brian Raney, but does not > point to anything. I then looked up other papers that used the track, and > none of the ones I looked at cite anything. They simply say in the text that > they looked at the TFBS track in the UCSC browser (e.g. eFelice, PLoS One; > Choy, BMC Genomics) and in one case ref the UCSC url (Cai, Cancer Research). > > I just wanted to be sure that understanding is clear. Perhaps I could do > what they did i the main text cite the Kent 2002 Gen Res paper. But if there > is any better way to do this, I would love your guidance in order to give > the right attribution. > > Pardis > > On Tue, Mar 8, 2011 at 4:08 PM, Vanessa Kirkup Swing <[email protected]> > wrote: >> >> Dear Pardis, >> >> Please see our guidelines for citing Genome Browser annotation tracks >> here: >> http://genome.cse.ucsc.edu/cite.html >> >> To find references specific to a particular Genome Browser track, click >> on the blue track name on the main Genome Browser display page for the >> TFBS conserved track in the hg18 assembly. >> >> Feel free to contact the mailing list if you have further questions. >> >> Vanessa Kirkup Swing >> UCSC Genome Bioinformatics Group >> >> >> ----- Original Message ----- >> From: "Pardis Sabeti" <[email protected]> >> To: [email protected] >> Cc: "Shari Grossman" <[email protected]> >> Sent: Monday, March 7, 2011 8:09:12 PM >> Subject: [Genome] How do I reference TFBS conserved track in UCSC? >> >> Dear UCSC, >> >> We are using the TFBS conserved track in UCSC HG18 created by Matt >> Weirauch. >> How would we reference this in a manuscript, >> >> Thank you, >> Pardis >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome > > > > -- > Pardis Sabeti, MD, DPhil > Assistant Professor, Harvard University > Center for Systems Biology > Department of Organismic and Evolutionary Biology > Broad Institute of MIT and Harvard > > phone: (617) 384-5335 > website: www.sabetilab.org > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
