Hello Andy,
Thank you for using the UCSC Genome Browser and your question about finding a gene using chr:position data.
To obtain your genes of interest by creating a custom track and using the Data Integrator to perform an intersection.
It may be helpful to review the Data Integrator user's guide.
First, create a custom track with the chr:position data file.
For this example, the following position is the only entry in my custom track:
chr9 133265176 133275114
Then, navigate to the Data Integrator and select your favorite assembly:
clade: mammal
genome: Human
assembly: Dec. 2013 (GRCh38/hg38)
region to annotate: genome
Now, add your custom track:
group: Custom Tracks
track: User Track
Then, add your gene track of interest:
group: Genes and Gene Predictions
track: GENCODE v24
After your custom track and gene track have been added, under Output Options, click Choose fields...
A pop-up will appear and you will be able to select the fields that you are interested in.After you have selected the fields that you are interested in, click Done to exit the pop-up.
Once you are back on the main Data Integrator page, click get output.
You should get the following output in a new page (or file):
If you are new to the UCSC Genome Browser, you might also be interested in some introductory video tutorials available from our training page:
http://genome.ucsc.edu/training/index.html
http://www.openhelix.com/ucsc
I hope this is helpful. If you have any further questions, please reply to gen...@soe.ucsc.edu.
All messages sent to that address are archived on a publicly-accessible Google Groups forum.
If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.
Jairo Navarro
UCSC Genomics Institute
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