-
1
-
-
84863662483
-
Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using init
-
Agren, R. et al. (2012) Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using init. PLoS Comput. Biol., 8, e1002518.
-
(2012)
PLoS Comput. Biol.
, vol.8
-
-
Agren, R.1
-
2
-
-
84875609301
-
Spinal: Scalable protein interaction network alignment
-
Aladaǧ, A.E. and Erten, C. (2013) Spinal: Scalable protein interaction network alignment. Bioinformatics, 29, 917-924.
-
(2013)
Bioinformatics
, vol.29
, pp. 917-924
-
-
Aladaǧ, A.E.1
Erten, C.2
-
3
-
-
79952392096
-
Submap: Aligning metabolic pathways with subnetwork mappings
-
Ay, F. et al. (2011) Submap: Aligning metabolic pathways with subnetwork mappings. J. Comput. Biol., 18, 219-235.
-
(2011)
J. Comput. Biol.
, vol.18
, pp. 219-235
-
-
Ay, F.1
-
4
-
-
84874572467
-
Metabolic network alignment in large scale by network compression
-
Ay, F. et al. (2012) Metabolic network alignment in large scale by network compression. BMC Bioinformatics, 13 (Suppl. 3), S2.
-
(2012)
BMC Bioinformatics
, vol.13
, Issue.SUPPL.3
-
-
Ay, F.1
-
5
-
-
79960613860
-
Belief propagation for weighted b-matchings on arbitrary graphs and its relation to linear programs with integer solutions
-
Bayati, M. et al. (2011) Belief propagation for weighted b-matchings on arbitrary graphs and its relation to linear programs with integer solutions. SIAM J. Discrete Math., 25, 989-1011.
-
(2011)
SIAM J Discrete Math.
, vol.25
, pp. 989-1011
-
-
Bayati, M.1
-
6
-
-
59949092688
-
Murine and human cathepsin B exhibit similar properties: Possible implications for drug discovery
-
Caglic, D. et al. (2009) Murine and human cathepsin B exhibit similar properties: Possible implications for drug discovery. Biol. Chem., 390, 175-179.
-
(2009)
Biol. Chem.
, vol.390
, pp. 175-179
-
-
Caglic, D.1
-
7
-
-
38549117301
-
The MetaCyc database of metabolic pathways and enzymes and the biocyc collection of pathway/genome databases
-
Caspi, R. et al. (2008) The MetaCyc database of metabolic pathways and enzymes and the biocyc collection of pathway/genome databases. Nucleic Acids Res., 36, D623-31.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Caspi, R.1
-
8
-
-
77955495879
-
Local optimization for global alignment of protein interaction networks
-
Chindelevitch, L. et al. (2010) Local optimization for global alignment of protein interaction networks. In: Pacific Symposium on Biocomputing. Hawaii, USA, pp. 123-132.
-
(2010)
Pacific Symposium on Biocomputing. Hawaii, USA
, pp. 123-132
-
-
Chindelevitch, L.1
-
9
-
-
33846672559
-
Phylogenetic reconstruction from non-genomic data
-
Clemente, J.C. et al. (2007) Phylogenetic reconstruction from non-genomic data. Bioinformatics, 23, e110-e115.
-
(2007)
Bioinformatics
, vol.23
-
-
Clemente, J.C.1
-
10
-
-
0001214263
-
Maximum matching and a polyhedron with 0 1-vertices
-
Edmonds, J. (1965) Maximum matching and a polyhedron with 0 1-vertices. J. Res. Natl Bur. Stand. B, 69, 125-130.
-
(1965)
J. Res. Natl Bur. Stand. B
, vol.69
, pp. 125-130
-
-
Edmonds, J.1
-
11
-
-
33748257786
-
Graemlin: General and robust alignment of multiple large interaction networks
-
Flannick, J. et al. (2006) Graemlin: General and robust alignment of multiple large interaction networks. Genome Res., 16, 1169-1181.
-
(2006)
Genome Res.
, vol.16
, pp. 1169-1181
-
-
Flannick, J.1
-
12
-
-
0020917490
-
Scaling algorithms for network problems
-
SFCS '83. IEEE Computer Society, Washington, DC, USA
-
Gabow, H.N. (1983) Scaling algorithms for network problems. In Proceedings of the 24th Annual Symposium on Foundations of Computer Science, SFCS '83. IEEE Computer Society, Washington, DC, USA, pp. 248-258.
-
(1983)
Proceedings of the 24th Annual Symposium on Foundations of Computer Science
, pp. 248-258
-
-
Gabow, H.N.1
-
14
-
-
34547830837
-
A network-based method for target selection in metabolic networks
-
Guimerà, R. et al. (2007) A network-based method for target selection in metabolic networks. Bioinformatics, 23, 1616-1622.
-
(2007)
Bioinformatics
, vol.23
, pp. 1616-1622
-
-
Guimerà, R.1
-
15
-
-
4944219668
-
Deriving phylogenetic trees from the similarity analysis of metabolic pathways
-
Heymans, M. and Singh, A. (2003) Deriving phylogenetic trees from the similarity analysis of metabolic pathways. Bioinformatics, 19, 138-146.
-
(2003)
Bioinformatics
, vol.19
, pp. 138-146
-
-
Heymans, M.1
Singh, A.2
-
16
-
-
84858983547
-
KEGG for integration and interpretation of large-scale molecular data sets
-
Kanehisa, M. et al. (2012) KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res., 40, 109-114.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 109-114
-
-
Kanehisa, M.1
-
17
-
-
3442886313
-
Pathblast: A tool for alignment of protein interaction networks
-
Kelley, B.P. et al. (2004) Pathblast: A tool for alignment of protein interaction networks. Nucleic Acids Res., 32, 83-88.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 83-88
-
-
Kelley, B.P.1
-
18
-
-
33645985807
-
Pairwise alignment of protein interaction networks
-
Koyutürk, M. et al. (2006) Pairwise alignment of protein interaction networks. J. Comput. Biol., 13, 182-199.
-
(2006)
J. Comput. Biol.
, vol.13
, pp. 182-199
-
-
Koyutürk, M.1
-
19
-
-
79955751671
-
Integrative network alignment reveals large regions of global network similarity in yeast and human
-
Kuchaiev, O. and Pržulj, N. (2011) Integrative network alignment reveals large regions of global network similarity in yeast and human. Bioinformatics, 27, 1390-1396.
-
(2011)
Bioinformatics
, vol.27
, pp. 1390-1396
-
-
Kuchaiev, O.1
Pržulj, N.2
-
20
-
-
66349108229
-
Isorankn: Spectral methods for global alignment of multiple protein networks
-
Liao, C.S. et al. (2009) Isorankn: Spectral methods for global alignment of multiple protein networks. Bioinformatics, 25, i253-i258.
-
(2009)
Bioinformatics
, vol.25
-
-
Liao, C.S.1
-
23
-
-
78650490181
-
Comparative analysis of metabolic networks provides insight into the evolution of plant pathogenic and non-pathogenic lifestyles in Pseudomonas
-
Mithani, A. et al. (2011) Comparative analysis of metabolic networks provides insight into the evolution of plant pathogenic and non-pathogenic lifestyles in Pseudomonas. Mol. Biol. Evol., 28, 483-499.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 483-499
-
-
Mithani, A.1
-
24
-
-
24044488288
-
Alignment of metabolic pathways
-
Pinter, R.Y. et al. (2005) Alignment of metabolic pathways. Bioinformatics, 21, 3401-3408.
-
(2005)
Bioinformatics
, vol.21
, pp. 3401-3408
-
-
Pinter, R.Y.1
-
25
-
-
84867932159
-
A note on greedy algorithms for the maximum weighted independent set problem
-
Sakai, S. et al. (2003) A note on greedy algorithms for the maximum weighted independent set problem. Discrete Appl. Math., 126, 313-322.
-
(2003)
Discrete Appl. Math.
, vol.126
, pp. 313-322
-
-
Sakai, S.1
-
26
-
-
13844314048
-
Conserved patterns of protein interaction in multiple species
-
Sharan, R. et al. (2005) Conserved patterns of protein interaction in multiple species. Proc. Natl Acad. Sci. USA, 102, 1974-1979.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 1974-1979
-
-
Sharan, R.1
-
27
-
-
40549129437
-
Global alignment of multiple protein interaction networks
-
Singh, R. et al. (2008) Global alignment of multiple protein interaction networks. In: Pacific Symposium on Biocomputing. Hawaii, USA, pp. 303-314.
-
(2008)
Pacific Symposium on Biocomputing. Hawaii USA
, pp. 303-314
-
-
Singh, R.1
-
29
-
-
34047236483
-
Path matching and graph matching in biological networks
-
Yang, Q. and Sze, S.H. (2007) Path matching and graph matching in biological networks. J. Comput. Biol., 14, 56-67.
-
(2007)
J. Comput. Biol.
, vol.14
, pp. 56-67
-
-
Yang, Q.1
Sze, S.H.2
-
30
-
-
66349109783
-
Global alignment of protein-protein interaction networks by graph matching methods
-
Zaslavskiy, M. et al. (2009) Global alignment of protein-protein interaction networks by graph matching methods. Bioinformatics, 25, 259-267.
-
(2009)
Bioinformatics
, vol.25
, pp. 259-267
-
-
Zaslavskiy, M.1
-
31
-
-
34547852210
-
Alignment of molecular networks by integer quadratic programming
-
Zhenping, L. et al. (2007) Alignment of molecular networks by integer quadratic programming. Bioinformatics, 23, 1631-1639.
-
(2007)
Bioinformatics
, vol.23
, pp. 1631-1639
-
-
Zhenping, L.1
|