Small open reading frames: current prediction techniques and future prospect.

Abstract:

:Evidence is accumulating that small open reading frames (sORF, <100 codons) play key roles in many important biological processes. Yet, they are generally ignored in gene annotation despite they are far more abundant than the genes with more than 100 codons. Here, we demonstrate that popular homolog search and codon-index techniques perform poorly for small genes relative to that for larger genes, while a method dedicated to sORF discovery has a similar level of accuracy as homology search. The result is largely due to the small dataset of experimentally verified sORF available for homology search and for training ab initio techniques. It highlights the urgent need for both experimental and computational studies in order to further advance the accuracy of sORF prediction.

journal_name

Curr Protein Pept Sci

authors

Cheng H,Chan WS,Li Z,Wang D,Liu S,Zhou Y

doi

10.2174/138920311796957667

subject

Has Abstract

pub_date

2011-09-01 00:00:00

pages

503-7

issue

6

eissn

1389-2037

issn

1875-5550

pii

CPPS-143

journal_volume

12

pub_type

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