Identification and functional analysis of essential, conserved, housekeeping and duplicated genes.

Abstract:

:Gene conservation, duplication and constitutive expression are intricately linked and strong predictors of essentiality. Here, we introduce metrics based on diversity indices to measure gene conservation, duplication and constitutive expression and validate them by measuring their performance in prediction of essential genes. Conservation and duplication were measured using the diversity indices on the bit score profile of Escherichia coli K12 orthologues, across the genomes, and paralogues, within the genome respectively. Constitutive expression was measured using expression diversity of E. coli K12 genes across different conditions. In addition, we developed a systematic method for enrichment analysis of gene-sets in a given ranked list of genes. The method was used to identify genome-wide functions of essential, conserved, constitutively expressed and duplicated genes. Furthermore, we also ranked various operons, complexes and pathways according to their essentiality, conservation, constitutive expression and duplication.

journal_name

FEBS Lett

journal_title

FEBS letters

authors

Arun PV,Miryala SK,Chattopadhyay S,Thiyyagura K,Bawa P,Bhattacharjee M,Yellaboina S

doi

10.1002/1873-3468.12192

subject

Has Abstract

pub_date

2016-05-01 00:00:00

pages

1428-37

issue

10

eissn

0014-5793

issn

1873-3468

journal_volume

590

pub_type

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