WBConfCall 2014.06.05-Agenda and Minutes

From WormBaseWiki
Jump to navigationJump to search


New Staff Member Introduction

Sibyl Gao, joining the webdev team at OICR. Email: sibyl@wormbase.org

nurf-1 Gene structure

In C. elegans, nurf-1 is a complex gene structure that is composed of two main regions. Many isoforms are apparent in this locus. Some of these terminate halfway through the locus, some start in the second half and some span both halves.

In C. briggsae, C. japonica and C. remanei the homologous region to Cel-nurf-1 is composed of two completely separate genes, according to our normal gene curation standards.

In Drosophila and Human, the homologous region is a single complex gene producing many different isoforms, some of which span the two halves, as in C. elegans.

We have a user who is requesting help in naming this locus in C. briggsae for a paper.

There are other examples of complex gene loci that have been annotated in a variety ways. Often our hand has been forced as authors have imposed their view of how these should be named before a discussion of the implications. This has resulted in loci where we have the annotation as:

1) A single gene locus - single CGC name and single WBGene ID with non-overlapping isoforms.

2) Two completely different genes - two CGC names and two WBGene IDs

We think that having a single CGC name shared between two different genes could potentially result in problems for the website. Is this the case?

How should we represent and name these sort of loci in the future?