-
1
-
-
70449495363
-
-
D. Auber. Tulip : A huge graph visualisation framework. In P.Mutzel andM. Jünger, editors, Graph Drawing Softwares, Mathematics and Visualization, pages 105-126. Springer-Verlag, 2003.
-
D. Auber. Tulip : A huge graph visualisation framework. In P.Mutzel andM. Jünger, editors, Graph Drawing Softwares, Mathematics and Visualization, pages 105-126. Springer-Verlag, 2003.
-
-
-
-
2
-
-
33747832812
-
BiologicalNetworks: Visualization and analysis tool for systems biology
-
M. Baitaluk, M. Sedova, A. Ray, and A. Gupta. BiologicalNetworks: Visualization and analysis tool for systems biology. Nucleic Acids Res., 34:W466-W471, 2006.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Baitaluk, M.1
Sedova, M.2
Ray, A.3
Gupta, A.4
-
3
-
-
0035003178
-
A Graph Layout Algorithm for Drawing Metabolic Pathways
-
M. Becker and I. Rojas. A Graph Layout Algorithm for Drawing Metabolic Pathways. Bioinformatics, 17:461-467, 2001.
-
(2001)
Bioinformatics
, vol.17
, pp. 461-467
-
-
Becker, M.1
Rojas, I.2
-
4
-
-
34547816155
-
Metabolic network visualization eliminating node redundance and preserving metabolic pathways
-
R. Bourqui, V. Lacroix, L. Cottret, D. Auber, P. Mary, M.- F. Sagot, and F. Jourdan. Metabolic network visualization eliminating node redundance and preserving metabolic pathways. BMC Systems Biology, 1(29), 2007.
-
(2007)
BMC Systems Biology
, vol.1
, Issue.29
-
-
Bourqui, R.1
Lacroix, V.2
Cottret, L.3
Auber, D.4
Mary, P.5
Sagot, M.F.6
Jourdan, F.7
-
5
-
-
0036069537
-
Gene expression profiling of Escherichia coli growth transitions: An expanded stringent response model
-
D. E. Chang, D. J. Smalley, and T. Conway. Gene expression profiling of Escherichia coli growth transitions: an expanded stringent response model. Molecular Microbiology, 45(2):289-306, 2002.
-
(2002)
Molecular Microbiology
, vol.45
, Issue.2
, pp. 289-306
-
-
Chang, D.E.1
Smalley, D.J.2
Conway, T.3
-
6
-
-
70449492661
-
The Open Graph Drawing Framework
-
M. Chimani, C. Gutwenger, M. Jünger, K. Klein, P. Mutzel, and M. Schulz. The Open Graph Drawing Framework. In Proc. Graph Drawing 2007 (GD'07), Poster session, 2007.
-
(2007)
Proc. Graph Drawing 2007 (GD'07), Poster session
-
-
Chimani, M.1
Gutwenger, C.2
Jünger, M.3
Klein, K.4
Mutzel, P.5
Schulz, M.6
-
7
-
-
0348049802
-
Systems biology markup language: Level 2 and beyond
-
A. Finney and M. Hucka. Systems biology markup language: Level 2 and beyond. Biochem Soc Trans, 31(6):1472-1473, 2003.
-
(2003)
Biochem Soc Trans
, vol.31
, Issue.6
, pp. 1472-1473
-
-
Finney, A.1
Hucka, M.2
-
8
-
-
24144445382
-
Drawing Large Graphs with a Potential-Field-BasedMultilevel Algorithm
-
S. Hachul and M. Jünger. Drawing Large Graphs with a Potential-Field-BasedMultilevel Algorithm. In Proc. Graph Drawing 2004 (GD'04), pages 285-295, 2004.
-
(2004)
Proc. Graph Drawing 2004 (GD'04)
, pp. 285-295
-
-
Hachul, S.1
Jünger, M.2
-
9
-
-
34547586817
-
VisANT 3.0: New modules for pathway visualization, editing, prediction and construction
-
Z. Hu, D. M. Ng, T. Yamada, C. Chen, S. Kawashima, J. Mellor, B. Linghu, M. Kanehisa, J. M. Stuart, and C. DeLisi. VisANT 3.0: new modules for pathway visualization, editing, prediction and construction. Nucleic Acids Res., 35:W625-W632, 2007.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Hu, Z.1
Ng, D.M.2
Yamada, T.3
Chen, C.4
Kawashima, S.5
Mellor, J.6
Linghu, B.7
Kanehisa, M.8
Stuart, J.M.9
DeLisi, C.10
-
10
-
-
13444259844
-
Reactome: A knowledgebase of biological pathways
-
G. Joshi-Tope, M. Gillespie, I. Vastrik, P. D'Eustachio, E. Schmidt, B. de Bono, B. Jassal, G. R. Gopinath, G. R. Wu, L. Matthews, S. Lewis, E. Birney, and L. Stein. Reactome: a knowledgebase of biological pathways. Nucleic Acids Research, 33:D428-D432, 2005.
-
(2005)
Nucleic Acids Research
, vol.33
-
-
Joshi-Tope, G.1
Gillespie, M.2
Vastrik, I.3
D'Eustachio, P.4
Schmidt, E.5
de Bono, B.6
Jassal, B.7
Gopinath, G.R.8
Wu, G.R.9
Matthews, L.10
Lewis, S.11
Birney, E.12
Stein, L.13
-
11
-
-
33645241830
-
VANTED: A system for advanced data analysis and visualization in the context of biological networks
-
B. H. Junker, C. Klukas, and F. Schreiber. VANTED: A system for advanced data analysis and visualization in the context of biological networks. BMC Bioinformatics, 7:109, 2006.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 109
-
-
Junker, B.H.1
Klukas, C.2
Schreiber, F.3
-
12
-
-
27244436714
-
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
-
P. D. Karp, C. Ouzounis, C.Moore-Kochlacs, L. Goldovsky, P. Kaipa, D. Ahren, S. Tsoka, N. Darzentas, V. Kunin, and N. Lopez-Bigas. Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Research, 19:6083-6089, 2005.
-
(2005)
Nucleic Acids Research
, vol.19
, pp. 6083-6089
-
-
Karp, P.D.1
Ouzounis, C.2
Moore-Kochlacs, C.3
Goldovsky, L.4
Kaipa, P.5
Ahren, D.6
Tsoka, S.7
Darzentas, N.8
Kunin, V.9
Lopez-Bigas, N.10
-
13
-
-
13444262374
-
Ecocyc: A comprehensive database resource for Escherichia coli
-
I. Keseler, J. Collado-Vides, S. Gama-Castro, J. Ingraham, S. Paley, I. Paulsen, M. Peralta-Gil, and P. D. Karp. Ecocyc: A comprehensive database resource for Escherichia coli. Nucleic Acids Research, 33:D334-D337, 2005.
-
(2005)
Nucleic Acids Research
, vol.33
-
-
Keseler, I.1
Collado-Vides, J.2
Gama-Castro, S.3
Ingraham, J.4
Paley, S.5
Paulsen, I.6
Peralta-Gil, M.7
Karp, P.D.8
-
14
-
-
23144431919
-
PathwayExplorer: Web service for visualizing high-throughput expression data on biological pathways
-
B. Mlecnik, M. Scheideler, H. Hackl, J. Hartler, F. Sanchez-Cabo, and Z. Trajanoski. PathwayExplorer: Web service for visualizing high-throughput expression data on biological pathways. Nucleic Acids Res., 33:W633-W637, 2005.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Mlecnik, B.1
Scheideler, M.2
Hackl, H.3
Hartler, J.4
Sanchez-Cabo, F.5
Trajanoski, Z.6
-
15
-
-
33748745026
-
The Pathway Tools cellular overview diagram and Omics Viewer
-
S. Pailey and P. D. Karp. The Pathway Tools cellular overview diagram and Omics Viewer. Nucleic Acids Research, 34(13):3771-3778, 2006.
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.13
, pp. 3771-3778
-
-
Pailey, S.1
Karp, P.D.2
-
16
-
-
84993730733
-
Visualizing biological pathways: Requirements analysis, systems evaluation and research agenda
-
P. Saraiya, C. North, and K. Duca. Visualizing biological pathways: Requirements analysis, systems evaluation and research agenda. Information Visualization, 4(3):191-205, 2005.
-
(2005)
Information Visualization
, vol.4
, Issue.3
, pp. 191-205
-
-
Saraiya, P.1
North, C.2
Duca, K.3
-
17
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
P. Shannon, A. Markiel, O. Ozier, N. S. Baliga, J. T. Wang, D. Ramage, N. Amin, B. Schwikowski, and T. Ideker. Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Res., 13(11):2498-2504, 2003.
-
(2003)
Genome Res
, vol.13
, Issue.11
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
Amin, N.7
Schwikowski, B.8
Ideker, T.9
-
18
-
-
35748962289
-
Tools for visually exploring biological networks
-
M. Suderman and M. Hallett. Tools for visually exploring biological networks. Bioinformatics, 23(20):2651-2659, 2007.
-
(2007)
Bioinformatics
, vol.23
, Issue.20
, pp. 2651-2659
-
-
Suderman, M.1
Hallett, M.2
-
19
-
-
0036047979
-
Graph-based analysis of metabolic networks
-
J. van Helden, L. Wernisch, D. Gilbert, and S. Wodak. Graph-based analysis of metabolic networks. Ernst Schering Research Foundation Workshop, 38:245-274, 2002.
-
(2002)
Ernst Schering Research Foundation Workshop
, vol.38
, pp. 245-274
-
-
van Helden, J.1
Wernisch, L.2
Gilbert, D.3
Wodak, S.4
-
20
-
-
34347210339
-
Genome expression pathway analysis tool - analysis and visualization of microarray gene expression data under genomic, proteomic and metabolic context
-
M. Weniger, J. C. Engelmann, and J. Schultz. Genome expression pathway analysis tool - analysis and visualization of microarray gene expression data under genomic, proteomic and metabolic context. BMC Bioinformatics, 8:179, 2007.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 179
-
-
Weniger, M.1
Engelmann, J.C.2
Schultz, J.3
-
21
-
-
54749094011
-
Visualizing genome expression and regulatory network dynamics in genomic and metabolic context
-
M. A. Westenberg, S. A. F. T. van Hijum, O. P. Kuipers, and J. B. T. M. Roerdink. Visualizing genome expression and regulatory network dynamics in genomic and metabolic context. Computer Graphics Forum, 27(3):887-894, 2008.
-
(2008)
Computer Graphics Forum
, vol.27
, Issue.3
, pp. 887-894
-
-
Westenberg, M.A.1
van Hijum, S.A.F.T.2
Kuipers, O.P.3
Roerdink, J.B.T.M.4
-
22
-
-
54749091129
-
Interactive visualization of gene regulatory networks with associated gene expression time series data
-
M. A. Westenberg, S. A. F. T. van Hijum, A. T. Lulko, O. P. Kuipers, and J. B. T. M. Roerdink. Interactive visualization of gene regulatory networks with associated gene expression time series data. In Visualization in Medicine Life Sciences, pages 293-312. 2007.
-
(2007)
Visualization in Medicine Life Sciences
, pp. 293-312
-
-
Westenberg, M.A.1
van Hijum, S.A.F.T.2
Lulko, A.T.3
Kuipers, O.P.4
Roerdink, J.B.T.M.5
-
23
-
-
0034278950
-
Visualizing gene expression in its metabolic context
-
D. Wolf, C. P. Gray, and A. de Saizieu. Visualizing gene expression in its metabolic context. Briefings in Bioinformatics, 1(3):297-304, 2000.
-
(2000)
Briefings in Bioinformatics
, vol.1
, Issue.3
, pp. 297-304
-
-
Wolf, D.1
Gray, C.P.2
de Saizieu, A.3
|