Difference between revisions of "WBConfCall 2014.06.05-Agenda and Minutes"
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Sibyl Gao, joining the webdev team at OICR. Email: sibyl@wormbase.org | Sibyl Gao, joining the webdev team at OICR. Email: sibyl@wormbase.org | ||
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| + | == nurf-1 Gene structure == | ||
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| + | 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. | ||
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| + | 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. | ||
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| + | 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. | ||
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| + | We have a user who is requesting help in naming this locus in C. briggsae for a paper. | ||
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| + | There are other examples of complex gene loci that have a variety of CGC names. | ||
| + | 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. | ||
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| + | 2) A completely different gene products - two CGC names and two WBGene IDs | ||
| + | |||
| + | We are aware that having a single CGC name shared between two different genes could result in problems for the website. | ||
| + | |||
| + | How should we represent and name these sort of loci in the future? | ||
Revision as of 08:21, 5 June 2014
Agenda
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 a variety of CGC names. 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) A completely different gene products - two CGC names and two WBGene IDs
We are aware that having a single CGC name shared between two different genes could result in problems for the website.
How should we represent and name these sort of loci in the future?
