Meanings of segment names like 13_Quiescent?

hoffmangroup / segway

Application for semi-automated genomic annotation.

http://segway.hoffmanlab.org/

GNU General Public License v2.0

13 stars 7 forks source link

Meanings of segment names like 13_Quiescent? #150

Open amadeusX opened 3 years ago

amadeusX commented 3 years ago

Hi, Many thanks for the Segway annotations of the HEK293 cell line. Could you please let us know the biological meanings of the numbered segment names: 0_Quiescent 10_LowConfidence 11_Quiescent 12_RegPermissive 13_Quiescent 1_Quiescent 2_Quiescent 3_Quiescent 4_Quiescent 5_FacultativeHet 6_Quiescent 7_RegPermissive 8_Promoter 9_Promoter

This is quite different from the segmentation listed at https://hoffmanlab.org/proj/segway/2011_segmentation.html Thank you very much! Best, Steve Ladunga

michaelmhoffman commented 3 years ago

@mlibbrecht I think this might be one of yours?

mlibbrecht commented 3 years ago

Hi Steve -- These are from our 2015 Genome Biology paper, which describes the different labels. The first number ("13_") is the original integer label from Segway, and the word ("Quiescent") is the biological meaning.

https://noble.gs.washington.edu/proj/encyclopedia/ https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1784-2