Literature DB >> 12714058

Missing genes in metabolic pathways: a comparative genomics approach.

Andrei Osterman1, Ross Overbeek.   

Abstract

The new techniques of genome context analysis--chromosomal gene clustering, protein fusions, occurrence profiles and shared regulatory sites--infer functional coupling between genes. In combination with metabolic reconstructions, these techniques can dramatically accelerate the pace of gene discovery.

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Year:  2003        PMID: 12714058     DOI: 10.1016/s1367-5931(03)00027-9

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.822


  130 in total

1.  3-Keto-5-aminohexanoate cleavage enzyme: a common fold for an uncommon Claisen-type condensation.

Authors:  Marco Bellinzoni; Karine Bastard; Alain Perret; Anne Zaparucha; Nadia Perchat; Carine Vergne; Tristan Wagner; Raquel C de Melo-Minardi; François Artiguenave; Georges N Cohen; Jean Weissenbach; Marcel Salanoubat; Pedro M Alzari
Journal:  J Biol Chem       Date:  2011-06-01       Impact factor: 5.157

2.  Genome evolution reveals biochemical networks and functional modules.

Authors:  Christian von Mering; Evgeny M Zdobnov; Sophia Tsoka; Francesca D Ciccarelli; Jose B Pereira-Leal; Christos A Ouzounis; Peer Bork
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-12       Impact factor: 11.205

Review 3.  Bacterial signal transduction network in a genomic perspective.

Authors:  Michael Y Galperin
Journal:  Environ Microbiol       Date:  2004-06       Impact factor: 5.491

Review 4.  'Conserved hypothetical' proteins: prioritization of targets for experimental study.

Authors:  Michael Y Galperin; Eugene V Koonin
Journal:  Nucleic Acids Res       Date:  2004-10-12       Impact factor: 16.971

Review 5.  A road map for the development of community systems (CoSy) biology.

Authors:  Karsten Zengler; Bernhard O Palsson
Journal:  Nat Rev Microbiol       Date:  2012-03-27       Impact factor: 60.633

6.  From complete genome sequence to 'complete' understanding?

Authors:  Michael Y Galperin; Eugene V Koonin
Journal:  Trends Biotechnol       Date:  2010-08       Impact factor: 19.536

Review 7.  Systematizing the generation of missing metabolic knowledge.

Authors:  Jeffrey D Orth; Bernhard Ø Palsson
Journal:  Biotechnol Bioeng       Date:  2010-10-15       Impact factor: 4.530

8.  Comparative genomics and functional analysis of the NiaP family uncover nicotinate transporters from bacteria, plants, and mammals.

Authors:  Linda Jeanguenin; Aurora Lara-Núñez; Dmitry A Rodionov; Andrei L Osterman; Nataliya Y Komarova; Doris Rentsch; Jesse F Gregory; Andrew D Hanson
Journal:  Funct Integr Genomics       Date:  2011-09-28       Impact factor: 3.410

9.  Reconstruction and visualization of carbohydrate, N-glycosylation pathways in Pichia pastoris CBS7435 using computational and system biology approaches.

Authors:  Akriti Srivastava; Pallavi Somvanshi; Bhartendu Nath Mishra
Journal:  Syst Synth Biol       Date:  2012-12-30

Review 10.  'Unknown' proteins and 'orphan' enzymes: the missing half of the engineering parts list--and how to find it.

Authors:  Andrew D Hanson; Anne Pribat; Jeffrey C Waller; Valérie de Crécy-Lagard
Journal:  Biochem J       Date:  2009-12-14       Impact factor: 3.857

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