Hello Hao Wu, Your data sound interesting and we would be happy to include them on our Custom Track page here: http://genome.ucsc.edu/goldenPath/customTracks/custTracks.html
Here is the process for inclusion on that page: 1. Generate Custom Tracks using the most appropriate data format following these guidelines (including the "track" lines, "description" lines, and data): http://genome.ucsc.edu/goldenPath/help/customTrack.html 2. Upload the Custom Tracks to a web accessible server at your institution. 3. Write a short paragraph describing your data. Include a link to your manuscript (if any). 4. Send the paragraph and URL of the location of the Custom Tracks to me and I will post the whole thing on the Custom Tracks page. We do not provide engineering or quality assurance support for the tracks on the Custom Tracks page. Regards, ---------- Ann Zweig Project Manager, UCSC Genome Browser http://genome.ucsc.edu On 1/20/11 8:35 AM, Wu, Hao wrote: > Hello, > > We have developed a new Hidden Markov Model based method to look for CpG > island (CGI) from DNA sequences. The existing definition of CGI (CG%>50%, > O/E>0.6) was mainly derived from looking at promoters of known human genes. > They might not work properly with newly discovered genomic marks (such as > methylation regions) or other species with different nucleotide compositions. > In our method the definition of CGI is totally data-driven, so that different > species will have different cutoffs. Based on our experience the CGIs derived > from our method have better overlaps with differentially methylated regions > (DMRs) in human and mouse. > > We currently have CGIs for following species: human (hg19 and hg18), mouse > (mm9 and mm8), rat (rn4), chimp (panTro2), rhesus (rheMac2), orangutan > (ponAbe2), cow (bosTau4), dog (canFam2), horse (equCab2), chicken (galGal3), > zebrafish (danRer6), bee (apiMel2), fly (dm3), worm (ce2) and Arabidopsis. > I’m wondering whether UCSC genome browser will be interested to add them as > new tracks. If so please let me know how to proceed. > > Thank you very much. > > Best Regards, > Hao Wu > > ________________________________ > This e-mail message (including any attachments) is for the sole use of > the intended recipient(s) and may contain confidential and privileged > information. If the reader of this message is not the intended > recipient, you are hereby notified that any dissemination, distribution > or copying of this message (including any attachments) is strictly > prohibited. > > If you have received this message in error, please contact > the sender by reply e-mail message and destroy all copies of the > original message (including attachments). > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
