TSS coordinates from Ensembl Biomart
0
2
Entering edit mode
6.2 years ago
ZheFrench ▴ 570

When you use biomart you can get 1-based TSS start coordinate. If you want to transform this coordinate to 0-based format you need to remove 1, whatever the strand is , right ?

If strand + , TSS is chr11 48488717 coordinate in biomart. If you want bed format, it will be :

chr11 48488716 48488717 name signalValue +

If strand - , TSS is chr11 64879712 coordinate in biomart. If you want bed format, it will be :

chr11 64879711 64879712 signalValue 0 -

ensembl biomart • 1.7k views
ADD COMMENT
1
Entering edit mode

you need to remove 1, whatever the strand is , right ?

yes

ADD REPLY
0
Entering edit mode

Move to an answer? Seems like an answer to me.... : )

ADD REPLY

Login before adding your answer.

Traffic: 1499 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