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- Title
Opinion: Vertebrate gene predictions and the problem of large genes.
- Authors
Wang, Jun; Li, ShengTing; Zhang, Yong; Zheng, HongKun; Xu, Zhao; Ye, Jia; Yu, Jun; Wong, Gane Ka-Shu
- Abstract
To find unknown protein-coding genes, annotation pipelines use a combination of ab initio gene prediction and similarity to experimentally confirmed genes or proteins. Here, we show that although the ab initio predictions have an intrinsically high false-positive rate, they also have a consistently low false-negative rate. The incorporation of similarity information is meant to reduce the false-positive rate, but in doing so it increases the false-negative rate. The crucial variable is gene size (including introns) - genes of the most extreme sizes, especially very large genes, are most likely to be incorrectly predicted.
- Publication
Nature Reviews Genetics, 2003, Vol 4, Issue 9, p741
- ISSN
1471-0056
- Publication type
Academic Journal
- DOI
10.1038/nrg1160