‘Democratized’ genomic enzymology web tools for functional assignment

Rémi Zallot, Nils O. Oberg, John Alan Gerlt

Research output: Contribution to journalReview article

Abstract

The protein databases contain an exponentially growing number of sequences as a result of the recent increase in ease and decrease in cost of genome sequencing. The rate of data accumulation far exceeds the rate of functional studies, producing an increase in genomic ‘dark matter’ sequences for which no precise and validated function is defined. Publicly accessible, that is ‘democratized,’ genomic enzymology web tools are essential to leverage the protein and genome databases for discovery of the in vitro activities and in vivo functions of novel enzymes and proteins belonging to the dark matter. In this review, we discuss the use of web tools that have proven successful for functional assignment. We also describe a mechanism for ensuring the capture of published functional data so that the quality of both curated and automated annotations transfer can be improved.

Original languageEnglish (US)
Pages (from-to)77-85
Number of pages9
JournalCurrent Opinion in Chemical Biology
Volume47
DOIs
StatePublished - Dec 1 2018

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Protein Databases
Genome
Genes
Proteins
Costs and Cost Analysis
Enzymes
Costs
Data Accuracy
In Vitro Techniques

ASJC Scopus subject areas

  • Analytical Chemistry
  • Biochemistry

Cite this

‘Democratized’ genomic enzymology web tools for functional assignment. / Zallot, Rémi; Oberg, Nils O.; Gerlt, John Alan.

In: Current Opinion in Chemical Biology, Vol. 47, 01.12.2018, p. 77-85.

Research output: Contribution to journalReview article

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