-
1
-
-
0024736066
-
Geometric computing and uniform grid technique
-
Akman,V. et al. (1989) Geometric computing and uniform grid technique. Comput. Aided Des., 21, 410-420.
-
(1989)
Comput. Aided Des
, vol.21
, pp. 410-420
-
-
Akman, V.1
-
2
-
-
34249751614
-
Cerebral: A Cytoscape plugin for layout of and interaction with biological networks using subcellular localization annotation
-
Barsky,A. et al. (2007) Cerebral: A Cytoscape plugin for layout of and interaction with biological networks using subcellular localization annotation. Bioinformatics, 23, 1040-1042.
-
(2007)
Bioinformatics
, vol.23
, pp. 1040-1042
-
-
Barsky, A.1
-
3
-
-
43949160006
-
Annotated bibliography on graph drawing algorithms
-
Battista,D.G. et al. (1994) Annotated bibliography on graph drawing algorithms. Comput. Geom. Theor. Appl., 4, 235-282.
-
(1994)
Comput. Geom. Theor. Appl
, vol.4
, pp. 235-282
-
-
Battista, D.G.1
-
5
-
-
85142147787
-
-
Becker.M.Y. and Rojas,I. (2001) A graph layout algorithm for drawing metabolic pathways. Bioinformatics, 17, 461-467.
-
Becker.M.Y. and Rojas,I. (2001) A graph layout algorithm for drawing metabolic pathways. Bioinformatics, 17, 461-467.
-
-
-
-
6
-
-
0343203195
-
Algorithmenzum automatischen Zeichnen von Graphen.
-
Brandenburg,F.-J. et al. (1997) Algorithmenzum automatischen Zeichnen von Graphen. Inform. Spektrum, 20, 199-207.
-
(1997)
Inform. Spektrum
, vol.20
, pp. 199-207
-
-
Brandenburg, F.-J.1
-
7
-
-
0022701012
-
Reporting and counting segment intersections
-
Chazelle,B. (1986) Reporting and counting segment intersections. J. Comput. Syst. Sci., 32, 156-182.
-
(1986)
J. Comput. Syst. Sci
, vol.32
, pp. 156-182
-
-
Chazelle, B.1
-
8
-
-
85032014893
-
Space-efficient ray-shooting and intersection searching: Algorithms, dynamization, and applications
-
Society for Industrial & Applied, San Francisco, USA, pp
-
Cheng,S.W. and Janardan,R. (1991) Space-efficient ray-shooting and intersection searching: Algorithms, dynamization, and applications. In Proceedings of the second annual ACM-SIAM symposium on Discrete algorithms. Society for Industrial & Applied, San Francisco, USA, pp. 7-16.
-
(1991)
Proceedings of the second annual ACM-SIAM symposium on Discrete algorithms
, pp. 7-16
-
-
Cheng, S.W.1
Janardan, R.2
-
9
-
-
33751376743
-
Supporting the SBML layout extension
-
Deckard,A. et al. (2006) Supporting the SBML layout extension. Bioinformatics, 22, 2966-2967.
-
(2006)
Bioinformatics
, vol.22
, pp. 2966-2967
-
-
Deckard, A.1
-
10
-
-
0036326896
-
PATIKA: An integrated visual environment for collaborative construction and analysis of cellular pathways
-
Demir,E. et al. (2002) PATIKA: An integrated visual environment for collaborative construction and analysis of cellular pathways. Bioinformatics, 18, 996-1003.
-
(2002)
Bioinformatics
, vol.18
, pp. 996-1003
-
-
Demir, E.1
-
11
-
-
24144477533
-
A compound graph layout algorithm for biological pathways
-
Springer-Verlag, New York City, USA, pp
-
Dogrusoz,U. et al. (2004) A compound graph layout algorithm for biological pathways. In Proceedings of the 12th International Symposium on Graph Drawing. Springer-Verlag, New York City, USA, pp. 442-47.
-
(2004)
Proceedings of the 12th International Symposium on Graph Drawing
, pp. 442-447
-
-
Dogrusoz, U.1
-
12
-
-
32144455205
-
PATIKA web: A Web interface for analyzing biological pathways through advanced querying and visualization
-
Dogrusoz,U, et al. (2006) PATIKA web: A Web interface for analyzing biological pathways through advanced querying and visualization. Bioinformatics, 22, 374-375.
-
(2006)
Bioinformatics
, vol.22
, pp. 374-375
-
-
Dogrusoz, U.1
-
13
-
-
2642527148
-
Genomic Object Net: II. Modelling biopathways by hybrid functional Petri net with extension
-
Doi,A. et al. (2003) Genomic Object Net: II. Modelling biopathways by hybrid functional Petri net with extension. Appl. Bioinformatics 2, 185-188.
-
(2003)
Appl. Bioinformatics
, vol.2
, pp. 185-188
-
-
Doi, A.1
-
14
-
-
84905389375
-
A constrained, force-directed layout algorithm for biological pathways
-
Springer-Verlag, Rerugia, Italy, pp
-
Genc,B. and Dogrusoz,U. (2003) A constrained, force-directed layout algorithm for biological pathways. In Proceedings of the 11th International Symposium on Graph Drawing. Springer-Verlag, Rerugia, Italy, pp. 314-319.
-
(2003)
Proceedings of the 11th International Symposium on Graph Drawing
, pp. 314-319
-
-
Genc, B.1
Dogrusoz, U.2
-
15
-
-
33847274309
-
GOlorize: A cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring
-
Garcia,O. et al. (2007) GOlorize: A cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring. Bioinformatics, 23, 394-396.
-
(2007)
Bioinformatics
, vol.23
, pp. 394-396
-
-
Garcia, O.1
-
17
-
-
33747825750
-
A model diagram layout extension for SBML
-
Gauges,R. et al. (2006) A model diagram layout extension for SBML. Bioinformatics, 22, 1879-1885.
-
(2006)
Bioinformatics
, vol.22
, pp. 1879-1885
-
-
Gauges, R.1
-
18
-
-
0037805576
-
The KEGG database
-
Kanehisa,M. (2002) The KEGG database. Novartis Found Symp., 247 91-101.
-
(2002)
Novartis Found Symp
, vol.247
, pp. 91-101
-
-
Kanehisa, M.1
-
19
-
-
0002905694
-
Automated drawing of metabolic pathways
-
World Scientific Pub. Co. Inc, Florida, USA, pp
-
Karp,P.D. and Paley,S.M. (1994) Automated drawing of metabolic pathways. In Proceedings of the 3rd International Conference on Bioinformatics and Genome Research. World Scientific Pub. Co. Inc., Florida, USA, pp. 225-238.
-
(1994)
Proceedings of the 3rd International Conference on Bioinformatics and Genome Research
, pp. 225-238
-
-
Karp, P.D.1
Paley, S.M.2
-
20
-
-
33748545276
-
Automatic drawing of biological networks using cross cost and subcomponent data
-
Kato,M. et al. (2005) Automatic drawing of biological networks using cross cost and subcomponent data. Genome Inform., 16, 22-31.
-
(2005)
Genome Inform
, vol.16
, pp. 22-31
-
-
Kato, M.1
-
21
-
-
33947388382
-
An efficient grid layout algorithm for biological networks utilizing various biological attributes
-
Kojima,K. et al. (2007) An efficient grid layout algorithm for biological networks utilizing various biological attributes. BMC Bioinformatics, 8, 1-16.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 1-16
-
-
Kojima, K.1
-
22
-
-
0242380634
-
CADLIVE for constructing a large-scale biochemical network based on a simulation-directed notation and its application to yeast cell cycle
-
Kurata,H. et al. (2003) CADLIVE for constructing a large-scale biochemical network based on a simulation-directed notation and its application to yeast cell cycle. Nucleic Acids Res., 31, 4071-4084.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 4071-4084
-
-
Kurata, H.1
-
23
-
-
17844397967
-
CADLIVE dynamic simulator: Direct link of biochemical networks to dynamic models
-
Kurata,H. et al. (2005) CADLIVE dynamic simulator: Direct link of biochemical networks to dynamic models. Genome Res., 15, 590-600.
-
(2005)
Genome Res
, vol.15
, pp. 590-600
-
-
Kurata, H.1
-
24
-
-
18744387729
-
A grid layout algorithm for automatic drawing of biochemical networks
-
Li,W. and Kurata,H. (2005) A grid layout algorithm for automatic drawing of biochemical networks, Bioinformatics, 21, 2036-2042.
-
(2005)
Bioinformatics
, vol.21
, pp. 2036-2042
-
-
Li, W.1
Kurata, H.2
-
25
-
-
2642533799
-
Genomic Object Net: I. A platform for modelling and simulating biopathways
-
Nagasaki,M. et al. (2003) Genomic Object Net: I. A platform for modelling and simulating biopathways. Appl. Bioinformatics, 2 181-184.
-
(2003)
Appl. Bioinformatics
, vol.2
, pp. 181-184
-
-
Nagasaki, M.1
-
26
-
-
0028667911
-
Counting and reporting red/blue segment intersections
-
Palazzi,L. and Snoeyink,J. (1993) Counting and reporting red/blue segment intersections. CVGIP: Graph. Model. Im., 56, 304-310.
-
(1993)
CVGIP: Graph. Model. Im
, vol.56
, pp. 304-310
-
-
Palazzi, L.1
Snoeyink, J.2
-
27
-
-
84877261134
-
Endothelial activation: Intercellular signalizing pathways
-
Pober,J.S. (2002) Endothelial activation: Intercellular signalizing pathways. Arthritis Res., 4, S109-S116.
-
(2002)
Arthritis Res
, vol.4
-
-
Pober, J.S.1
-
28
-
-
33947371802
-
Cell fate simulation model of gustatory neurons with microRNAs double-negative feedback loop by hybrid functional Petri net with extension
-
Saito,A. et al. (2006) Cell fate simulation model of gustatory neurons with microRNAs double-negative feedback loop by hybrid functional Petri net with extension. Genome Inform., 17, 100-111.
-
(2006)
Genome Inform
, vol.17
, pp. 100-111
-
-
Saito, A.1
-
29
-
-
0035177003
-
The TRANSPATH signal transduction database: A knowledge base on signal transduction networks
-
Schacherer,F. et al. (2001) The TRANSPATH signal transduction database: A knowledge base on signal transduction networks. Bioinformatics, 17, 1053-1057.
-
(2001)
Bioinformatics
, vol.17
, pp. 1053-1057
-
-
Schacherer, F.1
-
30
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon,P. et al. (2003) Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504.
-
(2003)
Genome Res
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
-
31
-
-
0003751973
-
A practical approach to drawing undirected graphs
-
Technical Report CMUCS-94-161. Carnegie Mellon University, School of Computer Science
-
Tunkelang,D. (1994) A practical approach to drawing undirected graphs. Technical Report CMUCS-94-161. Carnegie Mellon University, School of Computer Science.
-
(1994)
-
-
Tunkelang, D.1
-
32
-
-
22444454099
-
JIGGLE: Java interactive graph layout environment
-
Springer-Verlag, Montreal, Canada, pp
-
Tunkelang,D. (1998) JIGGLE: Java interactive graph layout environment. In Proceedings of the 6th International Symposium on Graph Drawing Springer-Verlag, Montreal, Canada, pp. 412-422.
-
(1998)
Proceedings of the 6th International Symposium on Graph Drawing
, pp. 412-422
-
-
Tunkelang, D.1
-
33
-
-
25444504488
-
A new dynamical layout algorithm for complex biochemical reaction networks
-
Wegner,K. and Kummer,U. (2005) A new dynamical layout algorithm for complex biochemical reaction networks. BMC Bioinformatics, 6 1-12.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 1-12
-
-
Wegner, K.1
Kummer, U.2
|