Q:
We currently have in WormBase the ‘7K’ set of ncRNA genes as described in
the 2011 Integrative analysis modENCODE paper.

We have been looking at the new ENCODE/modENCODE Comparative analysis paper
in Nature.
This paper describes the supervised prediction of a set of ncRNA genes that
do not overlap existing genes.
It is not obvious where to get details of these predicted genes.

Is there a file of chromosomal locations of these genes that we can have?

Are these predicted ncRNA genes suitable for replacing the old ‘7K’ set of
ncRNA genes?

A:
Hi, yes, you can get these from encodeproject.org/comparative . I do
think these can supplement the 7k.

I’d use the new set at encodeproject.org for a smaller, more high-quality & more conservative set than that in the ’10 paper. -marK