Literature DB >> 20976870

The challenges of integrating multi-omic data sets.

Bernhard Palsson1, Karsten Zengler.   

Abstract

Mesh：

Year:  2010        PMID： 20976870     DOI： 10.1038/nchembio.462

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN： 1552-4450            Impact factor:   15.040


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  16 in total

1.  Singular value decomposition for genome-wide expression data processing and modeling.

Authors:  O Alter; P O Brown; D Botstein
Journal:  Proc Natl Acad Sci U S A       Date:  2000-08-29       Impact factor: 11.205

2.  In silico biology through "omics".

Authors:  Bernhard Palsson
Journal:  Nat Biotechnol       Date:  2002-07       Impact factor: 54.908

3.  High-throughput generation, optimization and analysis of genome-scale metabolic models.

Authors:  Christopher S Henry; Matthew DeJongh; Aaron A Best; Paul M Frybarger; Ben Linsay; Rick L Stevens
Journal:  Nat Biotechnol       Date:  2010-08-29       Impact factor: 54.908

Review 4.  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

5.  Transcriptome complexity in a genome-reduced bacterium.

Authors:  Marc Güell; Vera van Noort; Eva Yus; Wei-Hua Chen; Justine Leigh-Bell; Konstantinos Michalodimitrakis; Takuji Yamada; Manimozhiyan Arumugam; Tobias Doerks; Sebastian Kühner; Michaela Rode; Mikita Suyama; Sabine Schmidt; Anne-Claude Gavin; Peer Bork; Luis Serrano
Journal:  Science       Date:  2009-11-27       Impact factor: 47.728

6.  What lies beyond bioinformatics?

Authors:  B O Palsson
Journal:  Nat Biotechnol       Date:  1997-01       Impact factor: 54.908

7.  The primary transcriptome of the major human pathogen Helicobacter pylori.

Authors:  Cynthia M Sharma; Steve Hoffmann; Fabien Darfeuille; Jérémy Reignier; Sven Findeiss; Alexandra Sittka; Sandrine Chabas; Kristin Reiche; Jörg Hackermüller; Richard Reinhardt; Peter F Stadler; Jörg Vogel
Journal:  Nature       Date:  2010-02-17       Impact factor: 49.962

8.  Reconstruction annotation jamborees: a community approach to systems biology.

Authors:  Ines Thiele; Bernhard Ø Palsson
Journal:  Mol Syst Biol       Date:  2010-04-13       Impact factor: 11.429

Review 9.  Metabolic systems biology.

Authors:  Bernhard Palsson
Journal:  FEBS Lett       Date:  2009-12-17       Impact factor: 4.124

Review 10.  Reconstruction of biochemical networks in microorganisms.

Authors:  Adam M Feist; Markus J Herrgård; Ines Thiele; Jennie L Reed; Bernhard Ø Palsson
Journal:  Nat Rev Microbiol       Date:  2008-12-31       Impact factor: 60.633
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  56 in total

Review 1.  Using the reconstructed genome-scale human metabolic network to study physiology and pathology.

Authors:  A Bordbar; B O Palsson
Journal:  J Intern Med       Date:  2012-02       Impact factor: 8.989

Review 2.  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

Review 3.  Systems metabolic engineering of microorganisms for natural and non-natural chemicals.

Authors:  Jeong Wook Lee; Dokyun Na; Jong Myoung Park; Joungmin Lee; Sol Choi; Sang Yup Lee
Journal:  Nat Chem Biol       Date:  2012-05-17       Impact factor: 15.040

4.  GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data.

Authors:  Brian J Schmidt; Ali Ebrahim; Thomas O Metz; Joshua N Adkins; Bernhard Ø Palsson; Daniel R Hyduke
Journal:  Bioinformatics       Date:  2013-08-23       Impact factor: 6.937

Review 5.  Predictive biology: modelling, understanding and harnessing microbial complexity.

Authors:  Allison J Lopatkin; James J Collins
Journal:  Nat Rev Microbiol       Date:  2020-05-29       Impact factor: 60.633

6.  Minimal metabolic pathway structure is consistent with associated biomolecular interactions.

Authors:  Aarash Bordbar; Harish Nagarajan; Nathan E Lewis; Haythem Latif; Ali Ebrahim; Stephen Federowicz; Jan Schellenberger; Bernhard O Palsson
Journal:  Mol Syst Biol       Date:  2014-07-01       Impact factor: 11.429

7.  Multi-omic data analysis using Galaxy.

Authors:  Jorrit Boekel; John M Chilton; Ira R Cooke; Peter L Horvatovich; Pratik D Jagtap; Lukas Käll; Janne Lehtiö; Pieter Lukasse; Perry D Moerland; Timothy J Griffin
Journal:  Nat Biotechnol       Date:  2015-02       Impact factor: 54.908

8.  Decoding ENCODE.

Authors: 
Journal:  Nat Chem Biol       Date:  2012-11       Impact factor: 15.040

9.  A Gateway between Omics Data and Systems Biology.

Authors:  Fabian V Filipp
Journal:  J Metabolomics Syst Biol       Date:  2013-11-01

Review 10.  Analysis of omics data with genome-scale models of metabolism.

Authors:  Daniel R Hyduke; Nathan E Lewis; Bernhard Ø Palsson
Journal:  Mol Biosyst       Date:  2012-12-18
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