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Biomolecular network querying: a promising approach in systems biology.

Zhang S, Zhang XS, Chen L.

BMC Syst Biol. 2008 Jan 18;2:5.PMID: 18205908 [PubMed - indexed for MEDLINE]Related articlesFree article

Discovering functions and revealing mechanisms at molecular level from biological networks.

Zhang S, Jin G, Zhang XS, Chen L.

Proteomics. 2007 Aug;7(16):2856-69. Review.PMID: 17703505 [PubMed - indexed for MEDLINE]Related articles

ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

Huan T, Sivachenko AY, Harrison SH, Chen JY.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S5.PMID: 18793469 [PubMed - indexed for MEDLINE]Related articlesFree article

A genomewide functional network for the laboratory mouse.

Guan Y, Myers CL, Lu R, Lemischka IR, Bult CJ, Troyanskaya OG.

PLoS Comput Biol. 2008 Sep 26;4(9):e1000165.PMID: 18818725 [PubMed - indexed for MEDLINE]Related articlesFree article

Network legos: building blocks of cellular wiring diagrams.

Murali TM, Rivera CG.

J Comput Biol. 2008 Sep;15(7):829-44.PMID: 18707557 [PubMed - indexed for MEDLINE]Related articles

Back to the biology in systems biology: what can we learn from biomolecular networks?

Huang S.

Brief Funct Genomic Proteomic. 2004 Feb;2(4):279-97. Review.PMID: 15163364 [PubMed - indexed for MEDLINE]Related articlesFree article

Network analysis approach for biology.

Kwoh CK, Ng PY.

Cell Mol Life Sci. 2007 Jul;64(14):1739-51. Review.PMID: 17415520 [PubMed - indexed for MEDLINE]Related articles

Network Analysis Tools: from biological networks to clusters and pathways.

Brohée S, Faust K, Lima-Mendez G, Vanderstocken G, van Helden J.

Nat Protoc. 2008;3(10):1616-29.PMID: 18802442 [PubMed - indexed for MEDLINE]Related articles

Multi-agent-based bio-network for systems biology: protein-protein interaction network as an example.

Ren LH, Ding YS, Shen YZ, Zhang XF.

Amino Acids. 2008 Oct;35(3):565-72. Epub 2008 Apr 19.PMID: 18425405 [PubMed - indexed for MEDLINE]Related articles

CellCircuits: a database of protein network models.

Mak HC, Daly M, Gruebel B, Ideker T.

Nucleic Acids Res. 2007 Jan;35(Database issue):D538-45. Epub 2006 Nov 29.PMID: 17135207 [PubMed - indexed for MEDLINE]Related articlesFree article

Exploiting the pathway structure of metabolism to reveal high-order epistasis.

Imielinski M, Belta C.

BMC Syst Biol. 2008 Apr 30;2:40.PMID: 18447928 [PubMed - indexed for MEDLINE]Related articlesFree article

Understanding biological functions through molecular networks.

Han JD.

Cell Res. 2008 Feb;18(2):224-37. Review.PMID: 18227860 [PubMed - indexed for MEDLINE]Related articlesFree article

Modularization of biochemical networks based on classification of Petri net t-invariants.

Grafahrend-Belau E, Schreiber F, Heiner M, Sackmann A, Junker BH, Grunwald S, Speer A, Winder K, Koch I.

BMC Bioinformatics. 2008 Feb 8;9:90.PMID: 18257938 [PubMed - indexed for MEDLINE]Related articlesFree article

QNet: a tool for querying protein interaction networks.

Dost B, Shlomi T, Gupta N, Ruppin E, Bafna V, Sharan R.

J Comput Biol. 2008 Sep;15(7):913-25.PMID: 18707533 [PubMed - indexed for MEDLINE]Related articles

Systems biology and its application to the understanding of neurological diseases.

Villoslada P, Steinman L, Baranzini SE.

Ann Neurol. 2009 Feb;65(2):124-39. Review.PMID: 19260029 [PubMed - indexed for MEDLINE]Related articles

Advancing the understanding of the embryo transcriptome co-regulation using meta-, functional, and gene network analysis tools.

Rodriguez-Zas SL, Ko Y, Adams HA, Southey BR.

Reproduction. 2008 Feb;135(2):213-24.PMID: 18239050 [PubMed - indexed for MEDLINE]Related articlesFree article

Underlying principles of natural selection in network evolution: systems biology approach.

Chen BS, Wu WS.

Evol Bioinform Online. 2007 Sep 26;3:245-62.PMID: 19468310 [PubMed - in process]Related articlesFree article

An integrative approach to characterize disease-specific pathways and their coordination: a case study in cancer.

Xu M, Kao MC, Nunez-Iglesias J, Nevins JR, West M, Zhou XJ.

BMC Genomics. 2008;9 Suppl 1:S12.PMID: 18366601 [PubMed - indexed for MEDLINE]Related articlesFree article

Introduction to systems biology.

Bruggeman FJ, Hornberg JJ, Boogerd FC, Westerhoff HV.

EXS. 2007;97:1-19.PMID: 17432261 [PubMed - indexed for MEDLINE]Related articles

ComPath: comparative enzyme analysis and annotation in pathway/subsystem contexts.

Choi K, Kim S.

BMC Bioinformatics. 2008 Mar 6;9:145.PMID: 18325116 [PubMed - indexed for MEDLINE]Related articlesFree article