Literature DB >> 23296751

Chemical approaches to study metabolic networks.

Daniel Medina-Cleghorn1, Daniel K Nomura.   

Abstract

One of the more provocative realizations that have come out of the genome sequencing projects is that organisms possess a large number of uncharacterized or poorly characterized enzymes. This finding belies the commonly held notion that our knowledge of cell metabolism is nearly complete, underscoring the vast landscape of unannotated metabolic and signaling networks that operate under normal physiological conditions, let alone in disease states where metabolic networks may be rewired, dysregulated, or altered to drive disease progression. Consequently, the functional annotation of enzymatic pathways represents a grand challenge for researchers in the post-genomic era. This review will highlight the chemical technologies that have been successfully used to characterize metabolism, and put forth some of the challenges we face as we expand our map of metabolic pathways.

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Year:  2013        PMID: 23296751      PMCID: PMC3713524          DOI: 10.1007/s00424-012-1201-0

Source DB:  PubMed          Journal:  Pflugers Arch        ISSN: 0031-6768            Impact factor:   3.657


  78 in total

Review 1.  Mass spectral analysis in proteomics.

Authors:  John R Yates
Journal:  Annu Rev Biophys Biomol Struct       Date:  2004

2.  MALDI mass spectrometric imaging of lipids in rat brain injury models.

Authors:  Joseph A Hankin; Santiago E Farias; Robert M Barkley; Kim Heidenreich; Lauren C Frey; Kei Hamazaki; Hee-Yong Kim; Robert C Murphy
Journal:  J Am Soc Mass Spectrom       Date:  2011-04-09       Impact factor: 3.109

3.  How chemoproteomics can enable drug discovery and development.

Authors:  Raymond E Moellering; Benjamin F Cravatt
Journal:  Chem Biol       Date:  2012-01-27

Review 4.  Mechanism-based profiling of enzyme families.

Authors:  Michael J Evans; Benjamin F Cravatt
Journal:  Chem Rev       Date:  2006-08       Impact factor: 60.622

5.  Discovery metabolite profiling--forging functional connections between the proteome and metabolome.

Authors:  Alan Saghatelian; Benjamin F Cravatt
Journal:  Life Sci       Date:  2005-08-19       Impact factor: 5.037

6.  Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis.

Authors:  Jason W Locasale; Alexandra R Grassian; Tamar Melman; Costas A Lyssiotis; Katherine R Mattaini; Adam J Bass; Gregory Heffron; Christian M Metallo; Taru Muranen; Hadar Sharfi; Atsuo T Sasaki; Dimitrios Anastasiou; Edouard Mullarky; Natalie I Vokes; Mika Sasaki; Rameen Beroukhim; Gregory Stephanopoulos; Azra H Ligon; Matthew Meyerson; Andrea L Richardson; Lynda Chin; Gerhard Wagner; John M Asara; Joan S Brugge; Lewis C Cantley; Matthew G Vander Heiden
Journal:  Nat Genet       Date:  2011-07-31       Impact factor: 38.330

7.  Monoacylglycerol lipase exerts dual control over endocannabinoid and fatty acid pathways to support prostate cancer.

Authors:  Daniel K Nomura; Donald P Lombardi; Jae Won Chang; Sherry Niessen; Anna M Ward; Jonathan Z Long; Heather H Hoover; Benjamin F Cravatt
Journal:  Chem Biol       Date:  2011-07-29

8.  Discovering disease-associated enzymes by proteome reactivity profiling.

Authors:  Katherine T Barglow; Benjamin F Cravatt
Journal:  Chem Biol       Date:  2004-11

9.  Blockade of endocannabinoid-degrading enzymes attenuates neuropathic pain.

Authors:  S G Kinsey; J Z Long; S T O'Neal; R A Abdullah; J L Poklis; D L Boger; B F Cravatt; A H Lichtman
Journal:  J Pharmacol Exp Ther       Date:  2009-06-05       Impact factor: 4.030

Review 10.  Metabolic networks in motion: 13C-based flux analysis.

Authors:  Uwe Sauer
Journal:  Mol Syst Biol       Date:  2006-11-14       Impact factor: 11.429

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  11 in total

1.  Multidimensional profiling platforms reveal metabolic dysregulation caused by organophosphorus pesticides.

Authors:  Daniel Medina-Cleghorn; Ann Heslin; Patrick J Morris; Melinda M Mulvihill; Daniel K Nomura
Journal:  ACS Chem Biol       Date:  2013-11-20       Impact factor: 5.100

Review 2.  Chemical approaches to therapeutically target the metabolism and signaling of the endocannabinoid 2-AG and eicosanoids.

Authors:  Rebecca A Kohnz; Daniel K Nomura
Journal:  Chem Soc Rev       Date:  2014-03-28       Impact factor: 54.564

3.  Cancer cells incorporate and remodel exogenous palmitate into structural and oncogenic signaling lipids.

Authors:  Sharon M Louie; Lindsay S Roberts; Melinda M Mulvihill; Kunxin Luo; Daniel K Nomura
Journal:  Biochim Biophys Acta       Date:  2013-07-19

Review 4.  Activity-based proteomic and metabolomic approaches for understanding metabolism.

Authors:  Devon Hunerdosse; Daniel K Nomura
Journal:  Curr Opin Biotechnol       Date:  2014-03-13       Impact factor: 9.740

5.  Endocannabinoid hydrolases in avian HD11 macrophages identified by chemoproteomics: inactivation by small-molecule inhibitors and pathogen-induced downregulation of their activity.

Authors:  Jung Hwa Lee; Xiang Hou; Evangel Kummari; Abdolsamad Borazjani; Mariola J Edelmann; Matthew K Ross
Journal:  Mol Cell Biochem       Date:  2017-12-01       Impact factor: 3.396

6.  Non-invasive in-cell determination of free cytosolic [NAD+]/[NADH] ratios using hyperpolarized glucose show large variations in metabolic phenotypes.

Authors:  Caspar Elo Christensen; Magnus Karlsson; Jakob R Winther; Pernille Rose Jensen; Mathilde H Lerche
Journal:  J Biol Chem       Date:  2013-12-03       Impact factor: 5.157

Review 7.  Systems Biology of Microbial Exopolysaccharides Production.

Authors:  Ozlem Ates
Journal:  Front Bioeng Biotechnol       Date:  2015-12-18

8.  Organophosphorus flame retardants inhibit specific liver carboxylesterases and cause serum hypertriglyceridemia.

Authors:  Patrick J Morris; Daniel Medina-Cleghorn; Ann Heslin; Sarah M King; Joseph Orr; Melinda M Mulvihill; Ronald M Krauss; Daniel K Nomura
Journal:  ACS Chem Biol       Date:  2014-03-10       Impact factor: 5.100

Review 9.  Toward a systems-level view of dynamic phosphorylation networks.

Authors:  Robert H Newman; Jin Zhang; Heng Zhu
Journal:  Front Genet       Date:  2014-08-15       Impact factor: 4.599

10.  RNA-Sequencing of Primary Retinoblastoma Tumors Provides New Insights and Challenges Into Tumor Development.

Authors:  Sailaja V Elchuri; Swetha Rajasekaran; Wayne O Miles
Journal:  Front Genet       Date:  2018-05-17       Impact factor: 4.599

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