Skip Navigation


Nucleic Acids Research Advance Access originally published online on December 12, 2007
Nucleic Acids Research 2008 36(Database issue):D480-D484; doi:10.1093/nar/gkm882
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (458K) Freely available
Right arrow Screen PDF (473K) Freely available
Right arrowOA All Versions of this Article:
36/suppl_1/D480    most recent
gkm882v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Kanehisa, M.
Right arrow Articles by Yamanishi, Y.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kanehisa, M.
Right arrow Articles by Yamanishi, Y.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2008, Vol. 36, Database issue D480-D484
© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

KEGG for linking genomes to life and the environment

Minoru Kanehisa1,2,*, Michihiro Araki2, Susumu Goto1, Masahiro Hattori1, Mika Hirakawa1,3, Masumi Itoh1, Toshiaki Katayama2, Shuichi Kawashima2, Shujiro Okuda1, Toshiaki Tokimatsu1 and Yoshihiro Yamanishi1

1Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, 2Human Genome Center, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo 108-8639 and 3Institute for Bioinformatics Research and Development, Japan Science and Technology Agency, Chiyoda-ku, Tokyo 102-8666, Japan

*To whom correspondence should be addressed. Tel: +81 774 38 3270; Fax: +81 774 38 3269; Email: kanehisa{at}kuicr.kyoto-u.ac.jp

Received September 13, 2007. Revised September 30, 2007. Accepted October 1, 2007.

KEGG (http://www.genome.jp/kegg/) is a database of biological systems that integrates genomic, chemical and systemic functional information. KEGG provides a reference knowledge base for linking genomes to life through the process of PATHWAY mapping, which is to map, for example, a genomic or transcriptomic content of genes to KEGG reference pathways to infer systemic behaviors of the cell or the organism. In addition, KEGG provides a reference knowledge base for linking genomes to the environment, such as for the analysis of drug-target relationships, through the process of BRITE mapping. KEGG BRITE is an ontology database representing functional hierarchies of various biological objects, including molecules, cells, organisms, diseases and drugs, as well as relationships among them. KEGG PATHWAY is now supplemented with a new global map of metabolic pathways, which is essentially a combined map of about 120 existing pathway maps. In addition, smaller pathway modules are defined and stored in KEGG MODULE that also contains other functional units and complexes. The KEGG resource is being expanded to suit the needs for practical applications. KEGG DRUG contains all approved drugs in the US and Japan, and KEGG DISEASE is a new database linking disease genes, pathways, drugs and diagnostic markers.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 J. Bacteriol.Home page
N. Jiao, R. Zhang, and Q. Zheng
Coexistence of Two Different Photosynthetic Operons in Citromicrobium bathyomarinum JL354 As Revealed by Whole-Genome Sequencing
J. Bacteriol., February 15, 2010; 192(4): 1169 - 1170.
[Abstract] [Full Text] [PDF]

Home page
 J. Bacteriol.Home page
S. Schmitz-Esser, P. Tischler, R. Arnold, J. Montanaro, M. Wagner, T. Rattei, and M. Horn
The Genome of the Amoeba Symbiont "Candidatus Amoebophilus asiaticus" Reveals Common Mechanisms for Host Cell Interaction among Amoeba-Associated Bacteria
J. Bacteriol., February 15, 2010; 192(4): 1045 - 1057.
[Abstract] [Full Text] [PDF]

Home page
 Cancer Res.Home page
J. Mattison, J. Kool, A. G. Uren, J. de Ridder, L. Wessels, J. Jonkers, G. R. Bignell, A. Butler, A. G. Rust, M. Brosch, et al.
Novel Candidate Cancer Genes Identified by a Large-Scale Cross-Species Comparative Oncogenomics Approach
Cancer Res., February 1, 2010; 70(3): 883 - 895.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
C. G. de Oliveira Dal'Molin, L.-E. Quek, R. W. Palfreyman, S. M. Brumbley, and L. K. Nielsen
AraGEM, a Genome-Scale Reconstruction of the Primary Metabolic Network in Arabidopsis
Plant Physiology, February 1, 2010; 152(2): 579 - 589.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. C. Sleumer, A. K. Mah, D. L. Baillie, and S. J. M. Jones
Conserved elements associated with ribosomal genes and their trans-splice acceptor sites in Caenorhabditis elegans
Nucleic Acids Res., January 25, 2010; (2010): gkq003v1 - gkq003.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Y. Waldman, T. Tuller, T. Shlomi, R. Sharan, and E. Ruppin
Translation efficiency in humans: tissue specificity, global optimization and differences between developmental stages
Nucleic Acids Res., January 21, 2010; (2010): gkq009v1 - gkq009.
[Abstract] [Full Text] [PDF]

Home page
 Appl. Environ. Microbiol.Home page
J. J. Margolis, S. El-Etr, L.-M. Joubert, E. Moore, R. Robison, A. Rasley, A. M. Spormann, and D. M. Monack
Contributions of Francisella tularensis subsp. novicida Chitinases and Sec Secretion System to Biofilm Formation on Chitin
Appl. Envir. Microbiol., January 15, 2010; 76(2): 596 - 608.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
The Nasonia Genome Working Group
Functional and Evolutionary Insights from the Genomes of Three Parasitoid Nasonia Species
Science, January 15, 2010; 327(5963): 343 - 348.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
R. K. Gaire, J. Bailey, J. Bearfoot, I. G. Campbell, P. J. Stuckey, and I. Haviv
MIRAGAA--a methodology for finding coordinated effects of microRNA expression changes and genome aberrations in cancer
Bioinformatics, January 15, 2010; 26(2): 161 - 167.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
G. Sales, A. Coppe, S. Bicciato, S. Bortoluzzi, and C. Romualdi
Impact of probe annotation on the integration of miRNA-mRNA expression profiles for miRNA target detection
Nucleic Acids Res., January 13, 2010; (2010) gkp1239v1.
[Abstract] [Full Text] [PDF]

Home page
 Brief BioinformHome page
M. G. Kann
Advances in translational bioinformatics: computational approaches for the hunting of disease genes
Brief Bioinform, January 1, 2010; 11(1): 96 - 110.
[Abstract] [Full Text] [PDF]

Home page
 J. Gen. Virol.Home page
K. Satoh, H. Kondoh, T. Sasaya, T. Shimizu, I.-R. Choi, T. Omura, and S. Kikuchi
Selective modification of rice (Oryza sativa) gene expression by rice stripe virus infection
J. Gen. Virol., January 1, 2010; 91(1): 294 - 305.
[Abstract] [Full Text] [PDF]

Home page
 MicrobiologyHome page
M. A. Martinez-Nunez, E. Perez-Rueda, R. M. Gutierrez-Rios, and E. Merino
New insights into the regulatory networks of paralogous genes in bacteria
Microbiology, January 1, 2010; 156(1): 14 - 22.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
E. W. Sayers, T. Barrett, D. A. Benson, E. Bolton, S. H. Bryant, K. Canese, V. Chetvernin, D. M. Church, M. DiCuccio, S. Federhen, et al.
Database resources of the National Center for Biotechnology Information
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D5 - D16.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Yamazaki, R. Akashi, Y. Banno, T. Endo, H. Ezura, K. Fukami-Kobayashi, K. Inaba, T. Isa, K. Kamei, F. Kasai, et al.
NBRP databases: databases of biological resources in Japan
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D26 - D32.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. Richardson, S. Venkataraman, P. Stevenson, Y. Yang, N. Burton, J. Rao, M. Fisher, R. A. Baldock, D. R. Davidson, and J. H. Christiansen
EMAGE mouse embryo spatial gene expression database: 2010 update
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D703 - D709.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
The UniProt Consortium
The Universal Protein Resource (UniProt) in 2010
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D142 - D148.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. M. Brinkac, T. Davidsen, E. Beck, A. Ganapathy, E. Caler, R. J. Dodson, A. S. Durkin, D. M. Harkins, H. Lorenzi, R. Madupu, et al.
Pathema: a clade-specific bioinformatics resource center for pathogen research
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D408 - D414.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. Y. Geer, A. Marchler-Bauer, R. C. Geer, L. Han, J. He, S. He, C. Liu, W. Shi, and S. H. Bryant
The NCBI BioSystems database
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D492 - D496.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
V. M. Markowitz, I-M. A. Chen, K. Palaniappan, K. Chu, E. Szeto, Y. Grechkin, A. Ratner, I. Anderson, A. Lykidis, K. Mavromatis, et al.
The integrated microbial genomes system: an expanding comparative analysis resource
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D382 - D390.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. L. Y. Koh, H. Ding, M. Costanzo, A. Baryshnikova, K. Toufighi, G. D. Bader, C. L. Myers, B. J. Andrews, and C. Boone
DRYGIN: a database of quantitative genetic interaction networks in yeast
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D502 - D507.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Kanehisa, S. Goto, M. Furumichi, M. Tanabe, and M. Hirakawa
KEGG for representation and analysis of molecular networks involving diseases and drugs
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D355 - D360.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Nakao, S. Okamoto, M. Kohara, T. Fujishiro, T. Fujisawa, S. Sato, S. Tabata, T. Kaneko, and Y. Nakamura
CyanoBase: the cyanobacteria genome database update 2010
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D379 - D381.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. Davidsen, E. Beck, A. Ganapathy, R. Montgomery, N. Zafar, Q. Yang, R. Madupu, P. Goetz, K. Galinsky, O. White, et al.
The comprehensive microbial resource
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D340 - D345.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Zhang, J. Lv, H. Liu, J. Zhu, J. Su, Q. Wu, Y. Qi, F. Wang, and X. Li
HHMD: the human histone modification database
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D149 - D154.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. Muller, D. Szklarczyk, P. Julien, I. Letunic, A. Roth, M. Kuhn, S. Powell, C. von Mering, T. Doerks, L. J. Jensen, et al.
eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D190 - D195.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. Lees, C. Yeats, O. Redfern, A. Clegg, and C. Orengo
Gene3D: merging structure and function for a Thousand genomes
Nucleic Acids Res., January 1, 2010; 38(suppl_1): D296 - D300.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
X. Dai, G. Wang, D. S. Yang, Y. Tang, P. Broun, M. D. Marks, L. W. Sumner, R. A. Dixon, and P. X. Zhao
TrichOME: A Comparative Omics Database for Plant Trichomes
Plant Physiology, January 1, 2010; 152(1): 44 - 54.
[Abstract] [Full Text] [PDF]

Home page
 Ann Rheum DisHome page
T Haupl, B Stuhlmuller, A Grutzkau, A Radbruch, and G-R Burmester
Does gene expression analysis inform us in rheumatoid arthritis?
Ann Rheum Dis, January 1, 2010; 69(Suppl_1): i37 - i42.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
L. F. d. Figueiredo, S. Schuster, C. Kaleta, and D. A. Fell
Response to comment on 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'
Bioinformatics, December 15, 2009; 25(24): 3330 - 3331.
[Full Text] [PDF]

Home page
 Appl. Environ. Microbiol.Home page
C. Simon, A. Wiezer, A. W. Strittmatter, and R. Daniel
Phylogenetic Diversity and Metabolic Potential Revealed in a Glacier Ice Metagenome
Appl. Envir. Microbiol., December 1, 2009; 75(23): 7519 - 7526.
[Abstract] [Full Text] [PDF]

Home page
 DNA ResHome page
S. Keerthikumar, S. Bhadra, K. Kandasamy, R. Raju, Y.L. Ramachandra, C. Bhattacharyya, K. Imai, O. Ohara, S. Mohan, and A. Pandey
Prediction of Candidate Primary Immunodeficiency Disease Genes Using a Support Vector Machine Learning Approach
DNA Res, December 1, 2009; 16(6): 345 - 351.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K. Faust, D. Croes, and J. van Helden
In response to 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'
Bioinformatics, December 1, 2009; 25(23): 3202 - 3205.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
H. Nam, B. C. Chung, Y. Kim, K. Lee, and D. Lee
Combining tissue transcriptomics and urine metabolomics for breast cancer biomarker identification
Bioinformatics, December 1, 2009; 25(23): 3151 - 3157.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K.-L. Ng, H.-C. Liu, and S.-C. Lee
ncRNAppi--a tool for identifying disease-related miRNA and siRNA targeting pathways
Bioinformatics, December 1, 2009; 25(23): 3199 - 3201.
[Abstract] [Full Text] [PDF]

Home page
 Plant Cell PhysiolHome page
S. Mano, T. Miwa, S.-i. Nishikawa, T. Mimura, and M. Nishimura
Seeing Is Believing: On the Use of Image Databases for Visually Exploring Plant Organelle Dynamics
Plant Cell Physiol., December 1, 2009; 50(12): 2000 - 2014.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
J.-G. Joung, A. M. Corbett, S. M. Fellman, D. M. Tieman, H. J. Klee, J. J. Giovannoni, and Z. Fei
Plant MetGenMAP: An Integrative Analysis System for Plant Systems Biology
Plant Physiology, December 1, 2009; 151(4): 1758 - 1768.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
S. Kuhner, V. van Noort, M. J. Betts, A. Leo-Macias, C. Batisse, M. Rode, T. Yamada, T. Maier, S. Bader, P. Beltran-Alvarez, et al.
Proteome Organization in a Genome-Reduced Bacterium
Science, November 27, 2009; 326(5957): 1235 - 1240.
[Abstract] [Full Text] [PDF]

Home page
 DatabaseHome page
D. Vallenet, S. Engelen, D. Mornico, S. Cruveiller, L. Fleury, A. Lajus, Z. Rouy, D. Roche, G. Salvignol, C. Scarpelli, et al.
MicroScope: a platform for microbial genome annotation and comparative genomics
Database, November 25, 2009; 2009(0): bap021 - bap021.
[Abstract] [Full Text] [PDF]

Home page
 J. Bacteriol.Home page
M. Moisi, C. Jenul, S. M. Butler, A. New, S. Tutz, J. Reidl, K. E. Klose, A. Camilli, and S. Schild
A Novel Regulatory Protein Involved in Motility of Vibrio cholerae
J. Bacteriol., November 15, 2009; 191(22): 7027 - 7038.
[Abstract] [Full Text] [PDF]

Home page
 J. Bacteriol.Home page
V. N. Kouvelis, E. Saunders, T. S. Brettin, D. Bruce, C. Detter, C. Han, M. A. Typas, and K. M. Pappas
Complete Genome Sequence of the Ethanol Producer Zymomonas mobilis NCIMB 11163
J. Bacteriol., November 15, 2009; 191(22): 7140 - 7141.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
H. Kashima, Y. Yamanishi, T. Kato, M. Sugiyama, and K. Tsuda
Simultaneous inference of biological networks of multiple species from genome-wide data and evolutionary information: a semi-supervised approach
Bioinformatics, November 15, 2009; 25(22): 2962 - 2968.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
B. Bostan, R. Greiner, D. Szafron, and P. Lu
Predicting homologous signaling pathways using machine learning
Bioinformatics, November 15, 2009; 25(22): 2913 - 2920.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K. M. Hettne, R. H. Stierum, M. J. Schuemie, P. J. M. Hendriksen, B. J. A. Schijvenaars, E. M. v. Mulligen, J. Kleinjans, and J. A. Kors
A dictionary to identify small molecules and drugs in free text
Bioinformatics, November 15, 2009; 25(22): 2983 - 2991.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
F. Meyer, R. Overbeek, and A. Rodriguez
FIGfams: yet another set of protein families
Nucleic Acids Res., November 1, 2009; 37(20): 6643 - 6654.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
M. Kayano, I. Takigawa, M. Shiga, K. Tsuda, and H. Mamitsuka
Efficiently finding genome-wide three-way gene interactions from transcript- and genotype-data
Bioinformatics, November 1, 2009; 25(21): 2735 - 2743.
[Abstract] [Full Text] [PDF]

Home page
 DiabetesHome page
A. Granjon, M.-P. Gustin, J. Rieusset, E. Lefai, E. Meugnier, I. Guller, C. Cerutti, C. Paultre, E. Disse, R. Rabasa-Lhoret, et al.
The microRNA Signature in Response to Insulin Reveals Its Implication in the Transcriptional Action of Insulin in Human Skeletal Muscle and the Role of a Sterol Regulatory Element-Binding Protein-1c/Myocyte Enhancer Factor 2C Pathway
Diabetes, November 1, 2009; 58(11): 2555 - 2564.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
K. A. Dunn, J. P. Bielawski, T. J. Ward, C. Urquhart, and H. Gu
Reconciling Ecological and Genomic Divergence among Lineages of Listeria under an "Extended Mosaic Genome Concept"
Mol. Biol. Evol., November 1, 2009; 26(11): 2605 - 2615.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
M. AbuOun, P. F. Suthers, G. I. Jones, B. R. Carter, M. P. Saunders, C. D. Maranas, M. J. Woodward, and M. F. Anjum
Genome Scale Reconstruction of a Salmonella Metabolic Model: COMPARISON OF SIMILARITY AND DIFFERENCES WITH A COMMENSAL Escherichia coli STRAIN
J. Biol. Chem., October 23, 2009; 284(43): 29480 - 29488.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K. Kinoshita and T. Obayashi
Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis
Bioinformatics, October 15, 2009; 25(20): 2677 - 2684.
[Abstract] [Full Text] [PDF]

Home page
 DatabaseHome page
L. A. Florez, S. F. Roppel, A. G. Schmeisky, C. R. Lammers, and J. Stulke
A community-curated consensual annotation that is continuously updated: the Bacillus subtilis centred wiki SubtiWiki
Database, September 17, 2009; 2009(0): bap012 - bap012.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
C. Huttenhower, M. A. Hibbs, C. L. Myers, A. A. Caudy, D. C. Hess, and O. G. Troyanskaya
The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction
Bioinformatics, September 15, 2009; 25(18): 2404 - 2410.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
D. Zamar, B. Tripp, G. Ellis, and D. Daley
Path: a tool to facilitate pathway-based genetic association analysis
Bioinformatics, September 15, 2009; 25(18): 2444 - 2446.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
L. Yang, L. Xu, and L. He
A CitationRank algorithm inheriting Google technology designed to highlight genes responsible for serious adverse drug reaction
Bioinformatics, September 1, 2009; 25(17): 2244 - 2250.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
V. M. Markowitz, K. Mavromatis, N. N. Ivanova, I-M. A. Chen, K. Chu, and N. C. Kyrpides
IMG ER: a system for microbial genome annotation expert review and curation
Bioinformatics, September 1, 2009; 25(17): 2271 - 2278.
[Abstract] [Full Text] [PDF]

Home page
 Appl. Environ. Microbiol.Home page
E. G. Biondi, E. Tatti, D. Comparini, E. Giuntini, S. Mocali, L. Giovannetti, M. Bazzicalupo, A. Mengoni, and C. Viti
Metabolic Capacity of Sinorhizobium (Ensifer) meliloti Strains as Determined by Phenotype MicroArray Analysis
Appl. Envir. Microbiol., August 15, 2009; 75(16): 5396 - 5404.
[Abstract] [Full Text] [PDF]

Home page
 Physiol. GenomicsHome page
P. Camateros, C. Kanagaratham, J. Henri, R. Sladek, T. J. Hudson, and D. Radzioch
Modulation of the allergic asthma transcriptome following resiquimod treatment
Physiol Genomics, August 7, 2009; 38(3): 303 - 318.
[Abstract] [Full Text] [PDF]

Home page
 J R Soc InterfaceHome page
L. Endler, N. Rodriguez, N. Juty, V. Chelliah, C. Laibe, C. Li, and N. Le Novere
Designing and encoding models for synthetic biology
J R Soc Interface, August 6, 2009; 6(Suppl_4): S405 - S417.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
F. Le Fevre, S. Smidtas, C. Combe, M. Durot, F. d'Alche-Buc, and V. Schachter
CycSim--an online tool for exploring and experimenting with genome-scale metabolic models
Bioinformatics, August 1, 2009; 25(15): 1987 - 1988.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
R. Cordaux
Gene Conversion Maintains Nonfunctional Transposable Elements in an Obligate Mutualistic Endosymbiont
Mol. Biol. Evol., August 1, 2009; 26(8): 1679 - 1682.
[Abstract] [Full Text] [PDF]

Home page
 Sci SignalHome page
S.-s. C. Huang and E. Fraenkel
Integrating Proteomic, Transcriptional, and Interactome Data Reveals Hidden Components of Signaling and Regulatory Networks
Sci. Signal., July 28, 2009; 2(81): ra40 - ra40.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
M. Chitale, T. Hawkins, C. Park, and D. Kihara
ESG: extended similarity group method for automated protein function prediction
Bioinformatics, July 15, 2009; 25(14): 1739 - 1745.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Biol. CellHome page
N. L. Quach, S. Biressi, L. F. Reichardt, C. Keller, and T. A. Rando
Focal Adhesion Kinase Signaling Regulates the Expression of Caveolin 3 and {beta}1 Integrin, Genes Essential for Normal Myoblast Fusion
Mol. Biol. Cell, July 15, 2009; 20(14): 3422 - 3435.
[Abstract] [Full Text] [PDF]

Home page
 Brief BioinformHome page
J. Skolnick and M. Brylinski
FINDSITE: a combined evolution/structure-based approach to protein function prediction
Brief Bioinform, July 1, 2009; 10(4): 378 - 391.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
C.-H. Chou, W.-C. Chang, C.-M. Chiu, C.-C. Huang, and H.-D. Huang
FMM: a web server for metabolic pathway reconstruction and comparative analysis
Nucleic Acids Res., July 1, 2009; 37(suppl_2): W129 - W134.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
D. Glez-Pena, G. Gomez-Lopez, D. G. Pisano, and F. Fdez-Riverola
WhichGenes: a web-based tool for gathering, building, storing and exporting gene sets with application in gene set enrichment analysis
Nucleic Acids Res., July 1, 2009; 37(suppl_2): W329 - W334.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Frisch, B. Klocke, M. Haltmeier, and K. Frech
LitInspector: literature and signal transduction pathway mining in PubMed abstracts
Nucleic Acids Res., July 1, 2009; 37(suppl_2): W135 - W140.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
R. Nogales-Cadenas, P. Carmona-Saez, M. Vazquez, C. Vicente, X. Yang, F. Tirado, J. M. Carazo, and A. Pascual-Montano
GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information
Nucleic Acids Res., July 1, 2009; 37(suppl_2): W317 - W322.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
D. Krushevskaya, H. Peterson, J. Reimand, M. Kull, and J. Vilo
VisHiC--hierarchical functional enrichment analysis of microarray data
Nucleic Acids Res., July 1, 2009; 37(suppl_2): W587 - W592.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
J. Meng, S.-J. Gao, and Y. Huang
Enrichment constrained time-dependent clustering analysis for finding meaningful temporal transcription modules
Bioinformatics, June 15, 2009; 25(12): 1521 - 1527.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
Y. Yamanishi, M. Hattori, M. Kotera, S. Goto, and M. Kanehisa
E-zyme: predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs
Bioinformatics, June 15, 2009; 25(12): i179 - i186.
[Abstract] [Full Text] [PDF]

Home page
 Physiol. GenomicsHome page
M. Medvedovic, R. Gear, J. M. Freudenberg, J. Schneider, R. Bornschein, M. Yan, M. J. Mistry, H. Hendrix, S. Karyala, D. Halbleib, et al.
Influence of fatty acid diets on gene expression in rat mammary epithelial cells
Physiol Genomics, June 10, 2009; 38(1): 80 - 88.
[Abstract] [Full Text] [PDF]

Home page
 J. Bacteriol.Home page
J. Lim, T.-H. Lee, B. H. Nahm, Y. D. Choi, M. Kim, and I. Hwang
Complete Genome Sequence of Burkholderia glumae BGR1
J. Bacteriol., June 1, 2009; 191(11): 3758 - 3759.
[Abstract] [Full Text] [PDF]

Home page
 Am. J. Respir. Cell Mol. Bio.Home page
I. P. Laumanns, L. Fink, J. Wilhelm, J.-C. Wolff, R. Mitnacht-Kraus, S. Graef-Hoechst, M. M. Stein, R. M. Bohle, W. Klepetko, M. A. R. Hoda, et al.
The Noncanonical WNT Pathway Is Operative in Idiopathic Pulmonary Arterial Hypertension
Am. J. Respir. Cell Mol. Biol., June 1, 2009; 40(6): 683 - 691.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
C. Huttenhower, E. M. Haley, M. A. Hibbs, V. Dumeaux, D. R. Barrett, H. A. Coller, and O. G. Troyanskaya
Exploring the human genome with functional maps
Genome Res., June 1, 2009; 19(6): 1093 - 1106.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
J. D. Zhang and S. Wiemann
KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor
Bioinformatics, June 1, 2009; 25(11): 1470 - 1471.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
F.-C. Chen, Y.-Z. Chen, and T.-J. Chuang
CNVVdb: a database of copy number variations across vertebrate genomes
Bioinformatics, June 1, 2009; 25(11): 1419 - 1421.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
I. Spasic, E. Simeonidis, H. L. Messiha, N. W. Paton, and D. B. Kell
KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways
Bioinformatics, June 1, 2009; 25(11): 1404 - 1411.
[Abstract] [Full Text] [PDF]

Home page
 Mult SclerHome page
J. Satoh, H Tabunoki, and T Yamamura
Molecular network of the comprehensive multiple sclerosis brain-lesion proteome
Multiple Sclerosis, May 1, 2009; 15(5): 531 - 541.
[Abstract] [PDF]

Home page
 Genome ResHome page
J. K. Pickrell, G. Coop, J. Novembre, S. Kudaravalli, J. Z. Li, D. Absher, B. S. Srinivasan, G. S. Barsh, R. M. Myers, M. W. Feldman, et al.
Signals of recent positive selection in a worldwide sample of human populations
Genome Res., May 1, 2009; 19(5): 826 - 837.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.