Question: Fw: Chip-Seq And Gene Ontology With Galaxy-Ucsc
0
gravatar for Mary Mangan
9.0 years ago by
Mary Mangan40
United States
Mary Mangan40 wrote:
I actually did an exercise that described how to get GO IDs and GO terms from UCSC Table Browser at the request of the ENCODE project folks who are doing similar stuff. In the UCSC Table Browser tutorial materials ( http://www.openhelix.com/cgi/tutorialInfo.cgi?id=28 ) click the Exercises button. See Exercise 3 to walk through it. Mary Mary Mangan, PhD President OpenHelix LLC 65 Main St. Somerville MA 02145 phone: 888-861-5051 x9 email: mmangan@openhelix.com http://blog.openhelix.com [mailto:galaxy-user-bounces@lists.bx.psu.edu] On Behalf Of Oscar V Camacho To: galaxy-user@bx.psu.edu Subject: [galaxy-user] ChIP-Seq and Gene Ontology with Galaxy-UCSC Hi, I am currently doing some ChIP-Seq experiments, to analyze the data I get from the PeakFinder of my choice I'm using the Galaxy tool from the UCSC browser to manipulate my intervals. What I have is a file in .BED format with the chromosome number, Start, End of the position and then I fetch the closest features and up to this moment everything is perfect but now that I have the positions of the nearest features to my putative binding sites I would like to get the gene symbol, description y GO for each one of them in a sort of table so as I can analyze it later on and make relationships. Is there a direct tool between Galaxy and a Gene ontology database? Any help about this topic will be appreciated. Thank you in advance.
chip-seq • 1.1k views
ADD COMMENTlink written 9.0 years ago by Mary Mangan40
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 171 users visited in the last hour