Molecular Pathways |
Physiological Pathways |
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| The individual diagram pages can be accessed directly from the list that
catalogs them alphabetically based on the major nodes of the pathway
ontology. Alternatively, one can search the pathway ontology for terms
of interest; the ontology report page provides an icon with a link to
the diagram page if one exists for that term. Click here to view choices of molecular pathways. |
The RGD physiological pathway diagrams display pathways at the whole animal and systems
levels with the ability to examine signaling networks, responses and
linked molecular pathways as well. Click here to view choices of physiological pathways. |
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| The pathway suites offer an instant snapshot of pathways that are connected within a larger network or context. The alphabetically listed suites can be accessed here. |
Pathway-related Publications by RGD Members
The updated RGD Pathway Portal utilizes increased curation efficiency and provides expanded pathway information.
Hayman
GT, Jayaraman P, Petri V, Tutaj M, Liu W, De Pons J, Dwinell MR,
Shimoyama M, Worthey E, Munzenmaier DH, Jacob HJ. Hum Genomics. 2013
7(1):4
PMID:23379628
Pathway Resources at the Rat Genome Database: A Dynamic Platform for Integrating Gene, Pathway and Disease Information.
Petri, V
Chapter
14 in Handbook of Research on Computational and Systems Biology:
Interdisciplinary Applications, IGI Global Publishers, 2011.
The rat genome database pathway portal.
Petri V, Shimoyama M, Hayman GT, Smith JR, Tutaj M, de Pons J, Dwinell MR, Munzenmaier DH, Twigger SN, Jacob HJ; RGD Team.
Database (Oxford). 2011 Apr 8;2011:bar010. Print 2011.
PMID: 21478484
The BioPAX community standard for pathway data sharing.
Demir
E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P,
Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z,
Jimenez-Jacinto V, Joshi-Tope G, Kandasamy K, Lopez-Fuentes AC, Mi H,
Pichler E, Rodchenkov I, Splendiani A, Tkachev S, Zucker J, Gopinath G,
Rajasimha H, Ramakrishnan R, Shah I, Syed M, Anwar N, Babur O, Blinov M,
Brauner E, Corwin D, Donaldson S, Gibbons F, Goldberg R, Hornbeck P,
Luna A, Murray-Rust P, Neumann E, Reubenacker O, Samwald M, van Iersel
M, Wimalaratne S, Allen K, Braun B, Whirl-Carrillo M, Cheung KH,
Dahlquist K, Finney A, Gillespie M, Glass E, Gong L, Haw R, Honig M,
Hubaut O, Kane D, Krupa S, Kutmon M, Leonard J, Marks D, Merberg D,
Petri V, Pico A, Ravenscroft D, Ren L, Shah N, Sunshine M, Tang R,
Whaley R, Letovksy S, Buetow KH, Rzhetsky A, Schachter V, Sobral BS,
Dogrusoz U, McWeeney S, Aladjem M, Birney E, Collado-Vides J, Goto S,
Hucka M, Le Novère N, Maltsev N, Pandey A, Thomas P, Wingender E, Karp
PD, Sander C, Bader GD.
Nat Biotechnol. 2010 Sep; 28(9): 935-42. Epub 2010 Sep 9. PMID: 20829833
Corrigendum: Nat Biotechnol. 2012 Apr;30(4):365. Reubenacker O [corrected to Ruebenacker O].
The Rat Genome Database 2009: variation, ontologies and pathways.
Dwinell
MR, Worthey EA, Shimoyama M, Bakir-Gungor B, DePons J, Laulederkind S,
Lowry T, Nigam R, Petri V, Smith J, Stoddard A, Twigger SN, Jacob HJ;
RGD Team.
Nucleic Acids Res. 2009 Jan; 37(Database issue): D744-9. Epub 2008 Nov 7. PMID: 18996890
Pathway-related Information and Data Links
RGD Pathway Portal Overview Rat Gene Pathway Annotations File Human Gene Pathway Annotations File Mouse Gene Pathway Annotations File
