Literature DB >> 24527465

A Gateway between Omics Data and Systems Biology.

Fabian V Filipp1.   

Abstract

Metabolomics captures the cellular chemistry and thereby the ultimate realization of numerous genetic, transcriptional, and enzymatic events. The mechanistic interpretation of small molecules as substrates, intermediates, or products of biochemical action is necessary to place metabolites into the correct physiological context of a system. Therefore, the tight connection between omics technologies and systems biology is vital.

Entities:  

Keywords:  Biomarker; Fingerprinting; Fluxomics; Genomics; Integrative; Metabolomics; Model; Multiplex; Networks; Omics; Personalized medicine; Profiling; Proteomics; Systems; Transcriptomics

Year:  2013        PMID： 24527465      PMCID： PMC3920656     

Source DB:  PubMed          Journal:  J Metabolomics Syst Biol


  9 in total

Review 1.  Systems biology: a brief overview.

Authors:  Hiroaki Kitano
Journal:  Science       Date:  2002-03-01       Impact factor: 47.728

2.  The challenges of integrating multi-omic data sets.

Authors:  Bernhard Palsson; Karsten Zengler
Journal:  Nat Chem Biol       Date:  2010-11       Impact factor: 15.040

3.  Metabolomics: integration of a new "omics" with clinical pharmacology.

Authors:  L P James
Journal:  Clin Pharmacol Ther       Date:  2013-11       Impact factor: 6.875

Review 4.  Network medicine: a network-based approach to human disease.

Authors:  Albert-László Barabási; Natali Gulbahce; Joseph Loscalzo
Journal:  Nat Rev Genet       Date:  2011-01       Impact factor: 53.242

Review 5.  Integrative approaches for finding modular structure in biological networks.

Authors:  Koyel Mitra; Anne-Ruxandra Carvunis; Sanath Kumar Ramesh; Trey Ideker
Journal:  Nat Rev Genet       Date:  2013-10       Impact factor: 53.242

6.  The sequence of the human genome.

Authors:  J C Venter; M D Adams; E W Myers; P W Li; R J Mural; G G Sutton; H O Smith; M Yandell; C A Evans; R A Holt; J D Gocayne; P Amanatides; R M Ballew; D H Huson; J R Wortman; Q Zhang; C D Kodira; X H Zheng; L Chen; M Skupski; G Subramanian; P D Thomas; J Zhang; G L Gabor Miklos; C Nelson; S Broder; A G Clark; J Nadeau; V A McKusick; N Zinder; A J Levine; R J Roberts; M Simon; C Slayman; M Hunkapiller; R Bolanos; A Delcher; I Dew; D Fasulo; M Flanigan; L Florea; A Halpern; S Hannenhalli; S Kravitz; S Levy; C Mobarry; K Reinert; K Remington; J Abu-Threideh; E Beasley; K Biddick; V Bonazzi; R Brandon; M Cargill; I Chandramouliswaran; R Charlab; K Chaturvedi; Z Deng; V Di Francesco; P Dunn; K Eilbeck; C Evangelista; A E Gabrielian; W Gan; W Ge; F Gong; Z Gu; P Guan; T J Heiman; M E Higgins; R R Ji; Z Ke; K A Ketchum; Z Lai; Y Lei; Z Li; J Li; Y Liang; X Lin; F Lu; G V Merkulov; N Milshina; H M Moore; A K Naik; V A Narayan; B Neelam; D Nusskern; D B Rusch; S Salzberg; W Shao; B Shue; J Sun; Z Wang; A Wang; X Wang; J Wang; M Wei; R Wides; C Xiao; C Yan; A Yao; J Ye; M Zhan; W Zhang; H Zhang; Q Zhao; L Zheng; F Zhong; W Zhong; S Zhu; S Zhao; D Gilbert; S Baumhueter; G Spier; C Carter; A Cravchik; T Woodage; F Ali; H An; A Awe; D Baldwin; H Baden; M Barnstead; I Barrow; K Beeson; D Busam; A Carver; A Center; M L Cheng; L Curry; S Danaher; L Davenport; R Desilets; S Dietz; K Dodson; L Doup; S Ferriera; N Garg; A Gluecksmann; B Hart; J Haynes; C Haynes; C Heiner; S Hladun; D Hostin; J Houck; T Howland; C Ibegwam; J Johnson; F Kalush; L Kline; S Koduru; A Love; F Mann; D May; S McCawley; T McIntosh; I McMullen; M Moy; L Moy; B Murphy; K Nelson; C Pfannkoch; E Pratts; V Puri; H Qureshi; M Reardon; R Rodriguez; Y H Rogers; D Romblad; B Ruhfel; R Scott; C Sitter; M Smallwood; E Stewart; R Strong; E Suh; R Thomas; N N Tint; S Tse; C Vech; G Wang; J Wetter; S Williams; M Williams; S Windsor; E Winn-Deen; K Wolfe; J Zaveri; K Zaveri; J F Abril; R Guigó; M J Campbell; K V Sjolander; B Karlak; A Kejariwal; H Mi; B Lazareva; T Hatton; A Narechania; K Diemer; A Muruganujan; N Guo; S Sato; V Bafna; S Istrail; R Lippert; R Schwartz; B Walenz; S Yooseph; D Allen; A Basu; J Baxendale; L Blick; M Caminha; J Carnes-Stine; P Caulk; Y H Chiang; M Coyne; C Dahlke; A Deslattes Mays; M Dombroski; M Donnelly; D Ely; S Esparham; C Fosler; H Gire; S Glanowski; K Glasser; A Glodek; M Gorokhov; K Graham; B Gropman; M Harris; J Heil; S Henderson; J Hoover; D Jennings; C Jordan; J Jordan; J Kasha; L Kagan; C Kraft; A Levitsky; M Lewis; X Liu; J Lopez; D Ma; W Majoros; J McDaniel; S Murphy; M Newman; T Nguyen; N Nguyen; M Nodell; S Pan; J Peck; M Peterson; W Rowe; R Sanders; J Scott; M Simpson; T Smith; A Sprague; T Stockwell; R Turner; E Venter; M Wang; M Wen; D Wu; M Wu; A Xia; A Zandieh; X Zhu
Journal:  Science       Date:  2001-02-16       Impact factor: 47.728

7.  Metabolomics of human breast cancer: new approaches for tumor typing and biomarker discovery.

Authors:  Carsten Denkert; Elmar Bucher; Mika Hilvo; Reza Salek; Matej Orešič; Julian Griffin; Scarlet Brockmöller; Frederick Klauschen; Sibylle Loibl; Dinesh Kumar Barupal; Jan Budczies; Kristiina Iljin; Valentina Nekljudova; Oliver Fiehn
Journal:  Genome Med       Date:  2012-04-30       Impact factor: 11.117

8.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962

9.  Cancer metabolism meets systems biology: Pyruvate kinase isoform PKM2 is a metabolic master regulator.

Authors:  Fabian V Filipp
Journal:  J Carcinog       Date:  2013-07-24
  9 in total
  3 in total

Review 1.  Augmentation of crop productivity through interventions of omics technologies in India: challenges and opportunities.

Authors:  Rajesh Kumar Pathak; Mamta Baunthiyal; Dinesh Pandey; Anil Kumar
Journal:  3 Biotech       Date:  2018-10-19       Impact factor: 2.406

2.  Metabolomic profiling of brain from infants who died from Sudden Infant Death Syndrome reveals novel predictive biomarkers.

Authors:  S F Graham; O P Chevallier; P Kumar; O Türko Gcaron Lu; R O Bahado-Singh
Journal:  J Perinatol       Date:  2016-09-08       Impact factor: 2.521

3.  A network of epigenomic and transcriptional cooperation encompassing an epigenomic master regulator in cancer.

Authors:  Stephen Wilson; Fabian Volker Filipp
Journal:  NPJ Syst Biol Appl       Date:  2018-07-01
  3 in total

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