Tag biopax [25 articles] Export

Recent papers classified by the tag biopax.

	Pathway databases and tools for their exploitation: benefits, current limitations and challenges. [My Copy] Molecular systems biology, Vol. 5 (28 July 2009) by Anna Bauer-Mehren, Laura I. Furlong, Ferran Sanz posted to protein-interaction-network database wikipathways sbml reactome mint kegg intact hprd egfr biopax biocarta by frohike on 2009-12-11 15:40:50 as along with 9 people saman_vp dullhunk thomaskelder ngehlenborg ptrobajo allysonlister daforerog mingzhi renatomilani
	ChiBE: interactive visualization and manipulation of BioPAX pathway models [My Copy] In Bioinformatics (9 December 2009), btp665. by Ozgun Babur, Ugur Dogrusoz, Emek Demir, Chris Sander posted to visualization biopax by frohike on 2009-12-10 10:01:24 as
	Pathway knowledge base: An integrated pathway resource using BioPAX [My Copy] Applied Ontology, Vol. 3, No. 4. (1 January 2008), pp. 235-245. by Nikesh Kotecha, Kyle Bruck, William Lu, Nigam Shah posted to systems-biology rdf pathway biopax by fgibson on 2009-11-16 13:45:24 as along with 2 people kshameer allysonlister
	Integrating BioPAX pathway knowledge with SBML models [My Copy] IET Systems Biology, Vol. 3, No. 5. (2009), pp. 317-328. by O. Ruebenacker, I. I. Moraru, J. C. Schaff, M. L. Blinov posted to systems-biology semantic-data-integration sbml data-integration biopax by allysonlister on 2009-11-16 11:19:06 as
	Representations of molecular pathways: an evaluation of SBML, PSI MI and BioPAX. [My Copy] Bioinformatics (Oxford, England), Vol. 21, No. 24. (15 December 2005), pp. 4401-4407. by L. Strömbäck, P. Lambrix posted to sbml psi-mi psi pathway biopax by fgibson on 2009-08-25 11:01:16 as along with 6 people and 2 groups allysonlister agomez kuhn balajis wnpx dagmar dIEMoSIRIS compneur
	Biophysical annotation and representation of CellML models [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2263-2270. by S. M. Wimalaratne, M. D. B. Halstead, C. M. Lloyd, E. J. Crampin, P. F. Nielsen posted to ontologies cellml biopax by allysonlister on 2009-08-20 10:17:40 as along with 2 people dagmar guhjy
	Application of XML database technology to biological pathway datasets. [My Copy] Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, Vol. 1 (2006), pp. 4217-4220. by Keyuan Jiang, Christopher Nash posted to biopax data-integration software xml by allysonlister on 2009-07-09 11:48:21 as along with 2 people irenas neilswainston
	Complexity and modularity of intracellular networks: a systematic approach for modelling and simulation. [My Copy] IET systems biology, Vol. 2, No. 5. (September 2008), pp. 363-368. by M. L. Blinov, O. Ruebenacker, I. I. Moraru posted to biopax modelling ontologies vcell by allysonlister on 2009-07-08 10:54:56 as along with 1 person jmuhlich
	Conversion from BioPAX to CSO for system dynamics and visualization of biological pathway. [My Copy] Genome informatics. International Conference on Genome Informatics, Vol. 18 (2007), pp. 225-236. by E. Jeong, M. Nagasaki, S. Miyano posted to biopax cso ontologies software by allysonlister on 2009-07-08 10:51:28 as along with 1 person JeremyZucker
	Cell system ontology: representation for modeling, visualizing, and simulating biological pathways. [My Copy] In silico biology, Vol. 7, No. 6. (2007), pp. 623-638. by E. Jeong, M. Nagasaki, A. Saito, S. Miyano posted to biopax cellml cso ontologies sbml by allysonlister on 2009-07-08 10:48:37 as along with 3 people and 1 group thegoose2 tharris guhjy C. elegans / WormBase
	Ontology-Based Aggregation of Biological Pathway Datasets [My Copy] Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005. 27th Annual International Conference of the In Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005. 27th Annual International Conference of the, Vol. 7 (2005), pp. 7742-7745. by Keyuan Jiang, C. Nash posted to biopax data-integration ontologies semantic-data-integration by allysonlister on 2009-07-08 10:45:26 as along with 2 people bootsy dansullivanblk
	e-Science and biological pathway semantics [My Copy] BMC Bioinformatics, Vol. 8, No. Suppl 3. (2007), S3. by Joanne Luciano, Robert Stevens posted to biopax ontologies by allysonlister on 2009-07-08 10:42:39 as along with 9 people artaban421 rmbrad guhjy dullhunk JeremyZucker bootsy tral dansullivanblk alanrw
	Representing, storing and accessing molecular interaction data: a review of models and tools. [My Copy] Briefings in bioinformatics, Vol. 7, No. 4. (December 2006), pp. 331-338. by L. Strömbäck, V. Jakoniene, H. Tan, P. Lambrix posted to biopax ontologies psimi review-articles sbml by allysonlister on 2009-07-08 10:40:36 as along with 6 people and 1 group Cortel yas balajis cjeans bootsy annacarina07 8_01
	PAX of mind for pathway researchers. [My Copy] Drug discovery today, Vol. 10, No. 13. (1 July 2005), pp. 937-942. by J. S. Luciano posted to biopax ontologies by allysonlister on 2009-07-08 10:39:07 as along with 4 people balajis wnpx dullhunk lenov
	Standards for systems biology [My Copy] Nature Reviews Genetics, Vol. 7, No. 8. (01 August 2006), pp. 593-605. by Alvis Brazma, Maria Krestyaninova, Ugis Sarkans posted to biopax miranda review standards by ptrobajo on 2009-04-09 13:32:42 as along with 17 people and 3 groups mtaschuk irenas abhishek_tiwari allysonlister hbricknell daforerog natstreet aalibes jfr rdiaz ronaldozhou mhucka dagmar peterli sgoetz giovenko fgibson dIEMoSIRIS compneur GelML
	An ontology-driven semantic mashup of gene and biological pathway information: Application to the domain of nicotine dependence. [My Copy] Journal of biomedical informatics (29 February 2008) by Satya S S. Sahoo, Olivier Bodenreider, Joni L L. Rutter, Karen J J. Skinner, Amit P P. Sheth posted to biopax ontologies semantic-data-integration software by allysonlister on 2009-02-13 13:48:22 as along with 5 people mitko SaraNasser dullhunk dansullivanblk guhjy
	Progress being made on standards for use in data sharing [My Copy] Nature, Vol. 456, No. 7218. (05 November 2008), pp. 29-29. by Douglas B. Kell posted to big-data biopax cellml douglas-kell miriam sbml by dullhunk on 2008-11-10 15:30:08 as along with 3 people pmendes applebyb druvus
	Biopathways representation and simulation on hybrid functional Petri net. [My Copy] In silico biology, Vol. 3, No. 3. (2003), pp. 389-404. by H. Matsuno, Y. Tanaka, H. Aoshima, A. Doi, M. Matsui, S. Miyano posted to biopax petri-net by JeremyZucker on 2008-07-31 20:14:49 as along with 1 person beete
	A versatile petri net based architecture for modeling and simulation of complex biological processes. [My Copy] Genome informatics. International Conference on Genome Informatics, Vol. 15, No. 1. (2004), pp. 180-197. by M. Nagasaki, A. Doi, H. Matsuno, S. Miyano posted to biopax petri-net by JeremyZucker on 2008-07-31 20:14:22 as along with 2 people ssaka lflorez
	Systematic reconstruction of TRANSPATH data into Cell System Markup Language [My Copy] BMC Systems Biology, Vol. 2, No. 1. (2008) by Masao Nagasaki, Ayumu Saito, Chen Li, Euna Jeong, Satoru Miyano posted to biopax by JeremyZucker on 2008-07-31 20:13:56 as along with 4 people guhjy jfr reyez bootsy
	An efficient grid layout algorithm for biological networks utilizing various biological attributes [My Copy] BMC Bioinformatics, Vol. 8 (06 March 2007), 76. by Kaname Kojima, Masao Nagasaki, Euna Jeong, Mitsuru Kato, Satoru Miyano posted to biopax graph-layout by JeremyZucker on 2008-07-31 20:09:21 as
	WikiPathways: Pathway Editing for the People [My Copy] PLoS Biol, Vol. 6, No. 7. (22 July 2008), e184. by Alexander R. Pico, Thomas Kelder, Martijn P. van Iersel, Kristina Hanspers, Bruce R. Conklin, Chris Evelo posted to biopax gpml pathway sbml wiki by dullhunk on 2008-07-30 08:32:22 as along with 23 people and 2 groups irenas neilswainston abhishek_tiwari sinhaa rolawren daforerog PaoloRomano thegoose2 fisherp fgibson guhjy psique ptrobajo cerami AlexanderPico thomaskelder iBartomeus renatomilani ajaymalik jarredmccaffrey laurianw amarois tharris ConklinLab behavior_flexibility
	BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 6. (15 March 2008), pp. 876-877. by A. Zinovyev, E. Viara, L. Calzone, E. Barillot posted to biopax cytoscape visualization by dullhunk on 2008-03-25 10:56:11 as along with 7 people druvus daforerog guhjy jfr grahamc sgoetz idonaldson
	CO: A chemical ontology for identification of functional groups and semantic comparison of small molecules. [My Copy] FEBS letters, Vol. 579, No. 21. (29 August 2005), pp. 4685-4691. by Howard J. Feldman, Michel Dumontier, Susan Ling, Norbert Haider, Christopher W. Hogue posted to biopax metabolic-reconstruction semantic-web by JeremyZucker to the group MetabolicModeling on 2007-10-30 19:31:59 as along with 4 people xavierprat pauldobson nicklynch kuhn
	A review of standards for data exchange within systems biology. [My Copy] Proteomics, Vol. 7, No. 6. (16 March 2007), pp. 857-867. by Lena Strömbäck, David Hall, Patrick Lambrix posted to biopax dataintegration psimi sbml standards by dagmar on 2007-04-27 07:29:54 as along with 3 people and 2 groups bootsy hpiwowar AlexanderPico dIEMoSIRIS compneur

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sbml	12
ontologies	10
pathway	8
psimi	5
data-integration	4
semantic-data-integration	4
standards	4
cellml	3
dataintegration	3
semantic-web	3
software	3
cso	2
cytoscape	2
data	2
dt	2
format	2
metabolic-reconstruction	2
owl	2
petri-net	2
psi-mi	2
rdf	2
reactome	2
representation	2
review-articles	2
systems-biology	2
visualization	2
xml	2
big-data	1
bio-ontologies	1
biocarta	1
database	1
douglas-kell	1
e-science	1
egfr	1
gochebi	1
gpml	1
graph-layout	1
hprd	1
intact	1
kegg	1
mint	1
miranda	1
miriam	1
modelling	1
oracle	1
pathways	1
protein-interaction-network	1
psi	1
review	1
semantics	1
snp	1
standard	1
vcell	1
wiki	1
wikipathways	1

Tag biopax [25 articles] Export

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