How To Calculate Non-Transcribed Strand Mutation In Sequencing
1
0
Entering edit mode
10.0 years ago
Liyf ▴ 30

Some researchers found mutations were significantly enriched in the non-transcribed DNA strand when doing next-generation sequencing, Is there any database for transcribed direction of every gene?

strand sequencing • 2.3k views
ADD COMMENT
2
Entering edit mode

Huh? Can you explain how a mutation could be present in the non-transcribed strand only? Maybe you could add a reference for the "Some researchers found..." part of your question.

ADD REPLY
0
Entering edit mode

The paper is "Integrated analysis of somatic mutations and focal copy-number changes identifies key genes and pathways in hepatocellular carcinoma", in it they say G>T transversions were significantly enriched in the non-transcribed DNA strand. Thank you for your advice.

ADD REPLY
0
Entering edit mode

Do you mean there are more transcription errors in the anti-sense transcribed mRNA? There can't be more mutations in the anti-sense DNA compared to sense DNA since they are complementary.

ADD REPLY
0
Entering edit mode

Yes, I think so. But the paper "Integrated analysis of somatic mutations and focal copy-number changes identifies key genes and pathways in hepatocellular carcinoma", in it they say G>T transversions were significantly enriched in the non-transcribed DNA strand.

ADD REPLY
0
Entering edit mode
10.0 years ago
Ido Tamir 5.2k

Every sane database of transcripts/genes includes the location of the transcripts together with the direction.

http://central.biomart.org/

http://genome.ucsc.edu/cgi-bin/hgTables?command=start

ADD COMMENT

Login before adding your answer.

Traffic: 1530 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6