Computational prediction of human metabolic pathways from the complete human genome
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* Corresponding author: Peter D Karp pkarp@ai.sri.com
Genome Biology 2004, 6:R2 doi:10.1186/gb-2004-6-1-r2
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MouseCyc: a curated biochemical pathways database for the laboratory mouse Alexei V Evsikov, Mary E Dolan, Michael P Genrich, Emily Patek, Carol J Bult Genome Biology 2009, 10:R84 (14 August 2009) MouseCyc is a database of curated metabolic pathways for the laboratory mouse. |
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The conservation and evolutionary modularity of metabolism José M Peregrín-Alvarez, Chris Sanford, John Parkinson Genome Biology 2009, 10:R63 (12 June 2009) A novel evolutionary analysis of metabolic networks across 26 taxa reveals a highly-conserved but flexible core of metabolic enzymes. |
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LeishCyc: a biochemical pathways database for Leishmania major Maria A Doyle, James I MacRae, David P De Souza, Eleanor C Saunders, Malcolm J McConville, Vladimir A Likić BMC Systems Biology 2009, 3:57 (5 June 2009) |
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Reconstruction of metabolic pathways for the cattle genome Seongwon Seo, Harris A Lewin BMC Systems Biology 2009, 3:33 (12 March 2009) |
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Stephen W Tanner, Pankaj Agarwal BMC Bioinformatics 2008, 9:348 (22 August 2008) |
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Analysis of Aspergillus nidulans metabolism at the genome-scale Helga David, İlknur Ş Özçelik, Gerald Hofmann, Jens Nielsen BMC Genomics 2008, 9:163 (11 April 2008) |
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Tunahan Çakιr, Selma Alsan, Hale Saybaşιlι, Ata Akιn, Kutlu Ö Ülgen Theoretical Biology and Medical Modelling 2007, 4:48 (10 December 2007) |
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A survey of orphan enzyme activities Yannick Pouliot, Peter D Karp BMC Bioinformatics 2007, 8:244 (10 July 2007) |
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e-Science and biological pathway semantics Joanne S Luciano, Robert D Stevens BMC Bioinformatics 2007, 8(Suppl 3):S3 (9 May 2007) |
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Software
Reactome: a knowledge base of biologic pathways and processes Imre Vastrik, Peter D'Eustachio, Esther Schmidt, Geeta Joshi-Tope, Gopal Gopinath, David Croft, Bernard de Bono, Marc Gillespie, Bijay Jassal, Suzanna Lewis, Lisa Matthews, Guanming Wu, Ewan Birney, Lincoln Stein Genome Biology 2007, 8:R39 (16 March 2007) Reactome, an online curated resource for human pathway data, can be used to infer equivalent reactions in non-human species and as a tool to aid in the interpretation of microarrays and other high-throughput data sets. |
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Software
The Adult Mouse Anatomical Dictionary: a tool for annotating and integrating data Terry F Hayamizu, Mary Mangan, John P Corradi, James A Kadin, Martin Ringwald Genome Biology 2005, 6:R29 (15 February 2005) This article is part of a collection on Ontologies The Adult Mouse Anatomical Dictionary was developed to provide an ontology for standardized nomenclature for anatomical terms in the postnatal mouse. The ontology will be used to annotate and integrate different types of data pertinent to anatomy. |