Frequently asked mailing list questions: Difference between revisions

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''How do I get a list of SNPs that correspond to my gene?''
''How do I get a list of SNPs that correspond to my gene?''
*[https://lists.soe.ucsc.edu/pipermail/genome/2006-December/012343.html https://lists.soe.ucsc.edu/pipermail/genome/2006-December/012343.html]
*[https://lists.soe.ucsc.edu/pipermail/genome/2006-December/012343.html https://lists.soe.ucsc.edu/pipermail/genome/2006-December/012343.html]
''How do I cross-reference UCSC gene names to RefSeq gene names?''
*[https://lists.soe.ucsc.edu/pipermail/genome/2011-January/024860.html https://lists.soe.ucsc.edu/pipermail/genome/2011-January/024860.html]


==Genome-Mirror==
==Genome-Mirror==

Revision as of 23:03, 27 January 2011

This page is intended to be a collection of previously answered questions on the Genome and Genome-Mirror mailing lists that are useful for answering repeat questions.

Genome

If a user is looking for human or mouse genome updates, point them to:

To report errors in the human or mouse assemblies:

For users looking for help identifying effects of their novel SNPs, send them to (thanks Angie):

I have a list of Gene Symbols and I would like to get corresponding sequences for them.

Sharing custom tracks

Help me create a Custom Track

Is there a size limit for custom tracks?

How do I find non-protein-coding genes?

I have a list of identifiers, how do I find the coordinates?

Format of chain, chainLink and net tables

How do I get a table of restriction enzymes?

Note that the utility findCutters is better than oligoMatch: oligoMatch has no good way of finding AsuI (G'GnC_C). It's possible but it would need to be run four times: GGACC, GGCCC, GGGCC, GGTCC and the output combined. findCutters does it all in one command.

GO

How do I find orthologous genes (using TransMap)

How do I find telomeres and centromeres?


Questions about SNPs?

Instructions for downloading jksrc

I want to compare species A with species B

To tell a user we would be willing to add a permanent custom track

Is multiwig functionality available for custom tracks

Why do some gene have startCodon = stopCodon (thickStart = thickEnd)?

How do I get a list of SNPs that correspond to my gene?

How do I cross-reference UCSC gene names to RefSeq gene names?

Genome-Mirror