Literature DB >> 18276143

iPath: interactive exploration of biochemical pathways and networks.

Ivica Letunic1, Takuji Yamada, Minoru Kanehisa, Peer Bork.   

Abstract

iPath is an open-access online tool (http://pathways.embl.de) for visualizing and analyzing metabolic pathways. An interactive viewer provides straightforward navigation through various pathways and enables easy access to the underlying chemicals and enzymes. Customized pathway maps can be generated and annotated using various external data. For example, by merging human genome data with two important gut commensals, iPath can pinpoint the complementarity of the host-symbiont metabolic capacities.

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Year:  2008        PMID： 18276143     DOI： 10.1016/j.tibs.2008.01.001

Source DB:  PubMed          Journal:  Trends Biochem Sci        ISSN： 0968-0004            Impact factor:   13.807


  83 in total

1.  Whole-genome sequencing of the snub-nosed monkey provides insights into folivory and evolutionary history.

Authors:  Xuming Zhou; Boshi Wang; Qi Pan; Jinbo Zhang; Sudhir Kumar; Xiaoqing Sun; Zhijin Liu; Huijuan Pan; Yu Lin; Guangjian Liu; Wei Zhan; Mingzhou Li; Baoping Ren; Xingyong Ma; Hang Ruan; Chen Cheng; Dawei Wang; Fanglei Shi; Yuanyuan Hui; Yujing Tao; Chenglin Zhang; Pingfen Zhu; Zuofu Xiang; Wenkai Jiang; Jiang Chang; Hailong Wang; Zhisheng Cao; Zhi Jiang; Baoguo Li; Guang Yang; Christian Roos; Paul A Garber; Michael W Bruford; Ruiqiang Li; Ming Li
Journal:  Nat Genet       Date:  2014-11-02       Impact factor: 38.330

2.  Evidence of cellulose metabolism by the giant panda gut microbiome.

Authors:  Lifeng Zhu; Qi Wu; Jiayin Dai; Shanning Zhang; Fuwen Wei
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-17       Impact factor: 11.205

3.  Comparative functional genomic analysis of Solanum glandular trichome types.

Authors:  Eric T McDowell; Jeremy Kapteyn; Adam Schmidt; Chao Li; Jin-Ho Kang; Anne Descour; Feng Shi; Matthew Larson; Anthony Schilmiller; Lingling An; A Daniel Jones; Eran Pichersky; Carol A Soderlund; David R Gang
Journal:  Plant Physiol       Date:  2010-11-19       Impact factor: 8.340

4.  Quantifying environmental adaptation of metabolic pathways in metagenomics.

Authors:  Tara A Gianoulis; Jeroen Raes; Prianka V Patel; Robert Bjornson; Jan O Korbel; Ivica Letunic; Takuji Yamada; Alberto Paccanaro; Lars J Jensen; Michael Snyder; Peer Bork; Mark B Gerstein
Journal:  Proc Natl Acad Sci U S A       Date:  2009-01-22       Impact factor: 11.205

5.  Multifactorial diversity sustains microbial community stability.

Authors:  Oylum Erkus; Victor C L de Jager; Maciej Spus; Ingrid J van Alen-Boerrigter; Irma M H van Rijswijck; Lucie Hazelwood; Patrick W M Janssen; Sacha A F T van Hijum; Michiel Kleerebezem; Eddy J Smid
Journal:  ISME J       Date:  2013-07-04       Impact factor: 10.302

6.  Pathways of Toxicity.

Authors:  Andre Kleensang; Alexandra Maertens; Michael Rosenberg; Suzanne Fitzpatrick; Justin Lamb; Scott Auerbach; Richard Brennan; Kevin M Crofton; Ben Gordon; Albert J Fornace; Kevin Gaido; David Gerhold; Robin Haw; Adriano Henney; Avi Ma'ayan; Mary McBride; Stefano Monti; Michael F Ochs; Akhilesh Pandey; Roded Sharan; Rob Stierum; Stuart Tugendreich; Catherine Willett; Clemens Wittwehr; Jianguo Xia; Geoffrey W Patton; Kirk Arvidson; Mounir Bouhifd; Helena T Hogberg; Thomas Luechtefeld; Lena Smirnova; Liang Zhao; Yeyejide Adeleye; Minoru Kanehisa; Paul Carmichael; Melvin E Andersen; Thomas Hartung
Journal:  ALTEX       Date:  2013-10-15       Impact factor: 6.043

7.  A human gut microbial gene catalogue established by metagenomic sequencing.

Authors:  Junjie Qin; Ruiqiang Li; Jeroen Raes; Manimozhiyan Arumugam; Kristoffer Solvsten Burgdorf; Chaysavanh Manichanh; Trine Nielsen; Nicolas Pons; Florence Levenez; Takuji Yamada; Daniel R Mende; Junhua Li; Junming Xu; Shaochuan Li; Dongfang Li; Jianjun Cao; Bo Wang; Huiqing Liang; Huisong Zheng; Yinlong Xie; Julien Tap; Patricia Lepage; Marcelo Bertalan; Jean-Michel Batto; Torben Hansen; Denis Le Paslier; Allan Linneberg; H Bjørn Nielsen; Eric Pelletier; Pierre Renault; Thomas Sicheritz-Ponten; Keith Turner; Hongmei Zhu; Chang Yu; Shengting Li; Min Jian; Yan Zhou; Yingrui Li; Xiuqing Zhang; Songgang Li; Nan Qin; Huanming Yang; Jian Wang; Søren Brunak; Joel Doré; Francisco Guarner; Karsten Kristiansen; Oluf Pedersen; Julian Parkhill; Jean Weissenbach; Peer Bork; S Dusko Ehrlich; Jun Wang
Journal:  Nature       Date:  2010-03-04       Impact factor: 49.962

Review 8.  Visualization of omics data for systems biology.

Authors:  Nils Gehlenborg; Seán I O'Donoghue; Nitin S Baliga; Alexander Goesmann; Matthew A Hibbs; Hiroaki Kitano; Oliver Kohlbacher; Heiko Neuweger; Reinhard Schneider; Dan Tenenbaum; Anne-Claude Gavin
Journal:  Nat Methods       Date:  2010-03       Impact factor: 28.547

Review 9.  Extending biochemical databases by metabolomic surveys.

Authors:  Oliver Fiehn; Dinesh K Barupal; Tobias Kind
Journal:  J Biol Chem       Date:  2011-05-12       Impact factor: 5.157

10.  Protein evolution on a human signaling network.

Authors:  Qinghua Cui; Enrico O Purisima; Edwin Wang
Journal:  BMC Syst Biol       Date:  2009-02-18
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