COMIT: identification of noncoding motifs under selection in coding sequences |
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Authors: | Deniz Kural Yang Ding Jiantao Wu Alicia M Korpi and Jeffrey H Chuang |
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Institution: | (1) Department of Biology, Boston College, 140 Commonwealth Avenue, 02467 Chestnut Hill, MA, USA |
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Abstract: | Coding nucleotide sequences contain myriad functions independent of their encoded protein sequences. We present the COMIT
algorithm to detect functional noncoding motifs in coding regions using sequence conservation, explicitly separating nucleotide
from amino acid effects. COMIT concurs with diverse experimental datasets, including splicing enhancers, silencers, replication
motifs, and microRNA targets, and predicts many novel functional motifs. Intriguingly, COMIT scores are well-correlated to
scores uncalibrated for amino acids, suggesting that nucleotide motifs often override peptide-level constraints. |
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