Literature DB >> 20157346

Biological Resource Centers and Systems Biology.

Yufeng Wang1, Timothy G Lilburn.   

Abstract

There are hundreds of Biological Resource Centers (BRCs) around the world, holding many little-studied microorganism. The proportion of bacterial strains that is well represented in the sequence and literature databases may be as low as 1%. This body of unexplored diversity represents an untapped source of useful strains and derived products. However, a modicum of phenotypic data is available for almost all the bacterial strains held by BRCs around the world. It is at the phenotypic level that our knowledge of the well-studied strains of bacteria and the many yet-to-be studied strains intersects. This suggests we might leverage the phenotypic data from the data-poor bacteria with the omics data from the data-rich bacteria, using our knowledge of their evolutionary relationships, to map the metabolic networks of the little-known bacteria. This systems biology-based approach is a new way to explore the diversity harbored in BRCs.

Entities:  

Year:  2009        PMID: 20157346      PMCID: PMC2783600          DOI: 10.1525/bio.2009.59.2.5

Source DB:  PubMed          Journal:  Bioscience        ISSN: 0006-3568            Impact factor:   8.589


  49 in total

1.  Inferring subnetworks from perturbed expression profiles.

Authors:  D Pe'er; A Regev; G Elidan; N Friedman
Journal:  Bioinformatics       Date:  2001       Impact factor: 6.937

2.  Building with a scaffold: emerging strategies for high- to low-level cellular modeling.

Authors:  Trey Ideker; Douglas Lauffenburger
Journal:  Trends Biotechnol       Date:  2003-06       Impact factor: 19.536

Review 3.  Analyzing cellular biochemistry in terms of molecular networks.

Authors:  Yu Xia; Haiyuan Yu; Ronald Jansen; Michael Seringhaus; Sarah Baxter; Dov Greenbaum; Hongyu Zhao; Mark Gerstein
Journal:  Annu Rev Biochem       Date:  2004       Impact factor: 23.643

4.  Integrating high-throughput and computational data elucidates bacterial networks.

Authors:  Markus W Covert; Eric M Knight; Jennifer L Reed; Markus J Herrgard; Bernhard O Palsson
Journal:  Nature       Date:  2004-05-06       Impact factor: 49.962

5.  Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data.

Authors:  Amos Tanay; Roded Sharan; Martin Kupiec; Ron Shamir
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-18       Impact factor: 11.205

6.  Systems biology and new technologies enable predictive and preventative medicine.

Authors:  Leroy Hood; James R Heath; Michael E Phelps; Biaoyang Lin
Journal:  Science       Date:  2004-10-22       Impact factor: 47.728

7.  A data integration methodology for systems biology: experimental verification.

Authors:  Daehee Hwang; Jennifer J Smith; Deena M Leslie; Andrea D Weston; Alistair G Rust; Stephen Ramsey; Pedro de Atauri; Andrew F Siegel; Hamid Bolouri; John D Aitchison; Leroy Hood
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-21       Impact factor: 11.205

8.  Phenotype microarrays for high-throughput phenotypic testing and assay of gene function.

Authors:  B R Bochner; P Gadzinski; E Panomitros
Journal:  Genome Res       Date:  2001-07       Impact factor: 9.043

Review 9.  The model organism as a system: integrating 'omics' data sets.

Authors:  Andrew R Joyce; Bernhard Ø Palsson
Journal:  Nat Rev Mol Cell Biol       Date:  2006-03       Impact factor: 94.444

10.  Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling.

Authors:  Hiroyuki Toh; Katsuhisa Horimoto
Journal:  Bioinformatics       Date:  2002-02       Impact factor: 6.937

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  1 in total

1.  Genome and Phenotype Microarray Analyses of Rhodococcus sp. BCP1 and Rhodococcus opacus R7: Genetic Determinants and Metabolic Abilities with Environmental Relevance.

Authors:  Alessandro Orro; Martina Cappelletti; Pasqualina D'Ursi; Luciano Milanesi; Alessandra Di Canito; Jessica Zampolli; Elena Collina; Francesca Decorosi; Carlo Viti; Stefano Fedi; Alessandro Presentato; Davide Zannoni; Patrizia Di Gennaro
Journal:  PLoS One       Date:  2015-10-01       Impact factor: 3.240

  1 in total

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