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 Lettjournal_title
FEBS lettersauthors
Arun PV,Miryala SK,Chattopadhyay S,Thiyyagura K,Bawa P,Bhattacharjee M,Yellaboina Sdoi
10.1002/1873-3468.12192subject
Has Abstractpub_date
2016-05-01 00:00:00pages
1428-37issue
10eissn
0014-5793issn
1873-3468journal_volume
590pub_type
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