Article

COUSIN (COdon Usage Similarity INdex): A normalized measure of Codon Usage Preferences

2019-04-05

Abstract excerpt

Codon Usage Preferences (CUPrefs) describe the unequal usage of synonymous codons at the gene, genomic region or genome scale. Numerous indices have been developed to measure the CUPrefs of a sequence. We introduce a normalized index to calculate CUPrefs called COUSIN for COdon Usage Similarity INdex. This index compares the CUPrefs of a query against those of a reference dataset and normalizes the output over a N...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 7adf34fc-099f-5855-a17d-85110514ea96
DOI: 10.1101/600361

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

COUSIN (COdon Usage Similarity INdex): A normalized measure of Codon Usage PreferencesDOI 10.1101/600361Read

Mapping the Inter- and Intra-genic Codon Usage Landscape in <i>Homo sapiens</i>Semantic proximity Read

Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance.Semantic proximity Read

The Dynamic Codon Biaser: calculating prokaryotic codon usage biases.Semantic proximity Read

A Suite of Foundation Models Captures the Contextual Interplay Between CodonsSemantic proximity Read

The codon frustration index as a new metric for mRNA stability, translation efficiency, and rates of protein synthesisSemantic proximity Read

A large-scale analysis of codon usage bias in 4868 bacterial genomes shows association of codon adaptation index with GC content, protein functional domains and bacterial phenotypes.Semantic proximity Read

Codon usage pattern and its influencing factors in different genomes of hepadnaviruses.Semantic proximity Read

TissueCoCoPUTs: Novel Human Tissue-Specific Codon and Codon-Pair Usage Tables Based on Differential Tissue Gene Expression.Semantic proximity Read

CAUSA 2.0: accurate and consistent evolutionary analysis of proteins using codon and amino acid unified sequence alignmentsSemantic proximity Read

Enhanced effective codon numbers to understand codon usage bias.Semantic proximity Read

The Patterns of Codon Usage between Chordates and Arthropods are Different but Co-evolving with Mutational Biases.Semantic proximity Read

E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI).Semantic proximity Read