Computational identification of protein-coding sequences by comparative analysis
Copyright policy )10.1504/ijdmb.2009.024849 , 10.1109/bibm.2007.53 , 10.1109/bibm.2007.52 , 10.1109/bibm.2007.27 , 10.1109/bibm.2007.23 , 10.1109/bibm.2007.54 , 10.1109/bibm.2007.9 , 10.1109/bibm.2007.14 , 10.1109/bibm.2007.60 , 10.1109/bibm.2007.71 , 10.1109/bibm.2007.66 , 10.1109/bibm.2007.28 , 10.1109/bibm.2007.11 , 10.1109/bibm.2007.57
10.1504/ijdmb.2009.024849 , 10.1109/bibm.2007.53 , 10.1109/bibm.2007.52 , 10.1109/bibm.2007.27 , 10.1109/bibm.2007.23 , 10.1109/bibm.2007.54 , 10.1109/bibm.2007.9 , 10.1109/bibm.2007.14 , 10.1109/bibm.2007.60 , 10.1109/bibm.2007.71 , 10.1109/bibm.2007.66 , 10.1109/bibm.2007.28 , 10.1109/bibm.2007.11 , 10.1109/bibm.2007.57
Computational identification of protein-coding sequences by comparative analysis
Gene prediction is an essential step in understanding the genome of a species once it has been sequenced. For that, a promising direction in current research on gene finding is a comparative genomics approach. In this paper, we present a novel approach to identifying evolutionarily conserved protein-coding sequences in genomes. The method takes advantage of the specific substitution pattern of coding sequences together with the consistency of reading frames. It has been implemented in a software called PROTEA. Large-scale experimentation shows good results. PROTEA is intended to be a useful complement to existing tools based on homology search or statistical properties of the sequences.
- University of California, Berkeley United States
- University of Salford United Kingdom
- Iowa State University United States
- North Carolina Agricultural and Technical State University United States
- Arizona State University United States
570, Bioinformatics, Molecular Sequence Data, MESH: Base Sequence, Cell and Developmental Biology, MESH: Software, Open Reading Frames, [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM], MESH: Molecular Sequence Data, [SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Base Sequence, MESH: Genomics, Computational Biology, Genetics and Genomics, 006, Genomics, MESH: Open Reading Frames, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], 620, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Software, MESH: Computational Biology
570, Bioinformatics, Molecular Sequence Data, MESH: Base Sequence, Cell and Developmental Biology, MESH: Software, Open Reading Frames, [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM], MESH: Molecular Sequence Data, [SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Base Sequence, MESH: Genomics, Computational Biology, Genetics and Genomics, 006, Genomics, MESH: Open Reading Frames, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], 620, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Software, MESH: Computational Biology
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