Results 51 to 60 of about 374,876 (335)

VitisCyc: A metabolic pathway knowledgebase for grapevine (Vitis vinifera)

Frontiers in Plant Science, 2014
We have developed VitisCyc, a grapevine-specific metabolic pathway database that allows researchers to i) search and browse the database for its various components such as metabolic pathways, reactions, compounds, genes and proteins, ii) compare ...
Sushma eNaithani, Rajani eRaja, Elijah Nathaniel Waddell, Justin eElser, Satyanarayana eGouthu, Laurent G. Deluc, Pankaj eJaiswal   +6 more
doaj   +1 more source

A statistical mechanics description of environmental variability in metabolic networks [PDF]

, 2014
Many of the chemical reactions that take place within a living cell are irreversible. Due to evolutionary pressures, the number of allowable reactions within these systems are highly constrained and thus the resulting metabolic networks display ...
A Cornish-Bowden, A Cornish-Bowden, A Kreimer, E Estrada, E Estrada, E Estrada, Ernesto Estrada, HW Ma, J Peña De la, J Xu, Jonathan J. Crofts, M Arita, M Buchanan, M Kanehisa, M Parter, P Holme, R Guimerá, R Montañez, V Lacroix, V Párez-Brocal   +19 more
core   +1 more source

Metabolomics and metabolic pathway networks from human colorectal cancers, adjacent mucosa, and stool [PDF]

Cancer & Metabolism, 2016
Colorectal cancers (CRC) are associated with perturbations in cellular amino acids, nucleotides, pentose-phosphate pathway carbohydrates, and glycolytic, gluconeogenic, and tricarboxylic acid intermediates. A non-targeted global metabolome approach was utilized for exploring human CRC, adjacent mucosa, and stool.
Brown, Dustin G., Rao, Sangeeta, Weir, Tiffany L., O’Malia, Joanne, Bazan, Marlon, Brown, Regina J., Ryan, Elizabeth P.   +6 more
openaire   +2 more sources

Phylophenetic properties of metabolic pathway topologies as revealed by global analysis

BMC Bioinformatics, 2006
Background As phenotypic features derived from heritable characters, the topologies of metabolic pathways contain both phylogenetic and phenetic components.
Sun Shiwei, Zhang Zefeng, Zhu Xiaopeng, Zhang Zhihua, Skogerbø Geir, Li Shaojuan, Zhang Yong, Lu Hongchao, Shi Baochen, Chen Runsheng   +9 more
doaj   +1 more source

MultiMetEval: comparative and multi-objective analysis of genome-scale metabolic models [PDF]

, 2012
Comparative metabolic modelling is emerging as a novel field, supported by the development of reliable and standardized approaches for constructing genome-scale metabolic models in high throughput.
A Freitag, A Gevorgyan, A Mithani, Albert Gevorgyan, AM Feist, AM Feist, AM Feist, Andrzej M. Kierzek, AP Burgard, BA Pfeifer, CS Henry, D Nagrath, DC Alexander, DC Stevens, EM Paradise, Eriko Takano, FC Lee, H Ikeda, I Thiele, J Gonzalez-Lergier, J Romero, J Schellenberger, JD Orth, JL Adrio, JP Brooks, JS Edwards, K Nieselt, K Yanai, LM Blank, M DeJongh, M Durot, M Kanehisa, M Latendresse, MA Fischbach, MA Oberhardt, MA Oberhardt, MA Oberhardt, Marnix H. Medema, MH Medema, MH Medema, MH Medema, MH Medema, MT Alam, MT Alam, MW Covert, N Scherr, ND Price, ND Price, NE Lewis, Piotr Zakrzewski, PR Ives, R Breitling, R Schuetz, Rainer Breitling, SA Becker, SD Bentley, Stephen S. Fong, TD Vo, TY Kim, XQ Zhao   +59 more
core   +6 more sources

Observing local and global properties of metabolic pathways: ‘load points’ and ‘choke points’ in the metabolic networks [PDF]

Bioinformatics, 2006
Abstract Motivation: The local and global aspects of metabolic network analyses allow us to identify enzymes or reactions that are crucial for the survival of the organism(s), therefore directing us towards the discovery of potential drug targets.
Syed Asad, Rahman, Dietmar, Schomburg
openaire   +2 more sources

Flux-based classification of reactions reveals a functional bow-tie organization of complex metabolic networks

, 2012
Unraveling the structure of complex biological networks and relating it to their functional role is an important task in systems biology. Here we attempt to characterize the functional organization of the large-scale metabolic networks of three ...
Giri, Varun, Jain, Sanjay, Krishna, Sandeep, Raghuram, Nandula, Samal, Areejit, Singh, Shalini   +5 more
core   +3 more sources

Integrating gene and protein expression data with genome-scale metabolic networks to infer functional pathways [PDF]

, 2013
This article has been made available through the Brunel Open Access Publishing Fund. Copyright @ 2013 Pey et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://
Beasley, JE, Pey, J, Planes, FJ, Rubio, A, Valgepea, K   +4 more
core   +1 more source

Quantitative proteomic characterization of human sperm cryopreservation: using data-independent acquisition mass spectrometry

BMC Urology, 2019
Background Human sperm cryopreservation is a simple and effective approach for male fertility preservation. Methods To identify potential proteomic changes in this process, data-independent acquisition (DIA), a technology with high quantitative accuracy ...
Longlong Fu, Qi An, Kaishu Zhang, Ying Liu, Yue Tong, Jianfeng Xu, Fang Zhou, Xiaowei Wang, Ying Guo, Wenhong Lu, Xiaowei Liang, Yiqun Gu   +11 more
doaj   +1 more source

Deciphering rice metabolic flux reprograming under salinity stress via in silico metabolic modeling

Computational and Structural Biotechnology Journal, 2020
Rice is one of the most economically important commodities globally. However, rice plants are salt susceptible species in which high salinity can significantly constrain its productivity. Several physiological parameters in adaptation to salt stress have
Kwanjeera Wanichthanarak, Chuthamas Boonchai, Thammaporn Kojonna, Supachitra Chadchawan, Wichian Sangwongchai, Maysaya Thitisaksakul   +5 more
doaj   +1 more source