-
2
-
-
73549086984
-
Computational systems approach for drug target discovery
-
Chandra N. Computational systems approach for drug target discovery. Expert Opin Drug Discov 2009;4(12):1221-36
-
(2009)
Expert Opin Drug Discov
, vol.4
, Issue.12
, pp. 1221-1236
-
-
Chandra, N.1
-
3
-
-
0031804609
-
Inhibitors of HIV-1 protease: A major success of structure-assisted drug design
-
Wlodawer A, Vondrasek J. Inhibitors of HIV-1 protease: a major success of structure-assisted drug design. Annu Rev Biophys Biomol Struct 1998;27:249-84
-
(1998)
Annu Rev Biophys Biomol Struct
, vol.27
, pp. 249-284
-
-
Wlodawer, A.1
Vondrasek, J.2
-
4
-
-
37349060000
-
A critique of the molecular target-based drug discovery paradigm based on principles of metabolic control: Advantages of pathway-based discovery
-
Hellerstein MK. A critique of the molecular target-based drug discovery paradigm based on principles of metabolic control: advantages of pathway-based discovery. Metab Eng 2008;10(1):1-9
-
(2008)
Metab Eng
, vol.10
, Issue.1
, pp. 1-9
-
-
Hellerstein, M.K.1
-
5
-
-
78650373804
-
Network medicine: A network-based approach to human disease
-
Barabasi AL, Gulbahce N, Loscalzo J. Network medicine: a network-based approach to human disease. Nat Rev Genet 2011;12(1):56-68
-
(2011)
Nat Rev Genet
, vol.12
, Issue.1
, pp. 56-68
-
-
Barabasi, A.L.1
Gulbahce, N.2
Loscalzo, J.3
-
6
-
-
41149167511
-
Network medicine
-
Pawson T, Linding R. Network medicine. FEBS Lett 2008;582(8):1266-70
-
(2008)
FEBS Lett
, vol.582
, Issue.8
, pp. 1266-1270
-
-
Pawson, T.1
Linding, R.2
-
7
-
-
0036500993
-
Systems biology: A brief overview
-
Kitano H. Systems biology: a brief overview. Science 2002;295(5560):1662- 4
-
(2002)
Science
, vol.295
, Issue.5560
, pp. 1662-1664
-
-
Kitano, H.1
-
8
-
-
84855929701
-
Systems cancer medicine: Towards realization of predictive, preventive, personalized and participatory (P4) medicine
-
Tian Q, Price ND, Hood L. Systems cancer medicine: towards realization of predictive, preventive, personalized and participatory (P4) medicine. J Intern Med 2012 ;271(2):111-21
-
(2012)
J Intern Med
, vol.271
, Issue.2
, pp. 111-121
-
-
Tian, Q.1
Price, N.D.2
Hood, L.3
-
9
-
-
80053230484
-
Computational approaches for drug target identification in pathogenic diseases
-
Chandra N. Computational approaches for drug target identification in pathogenic diseases. Expert Opin Drug Discov 2012;6(10):975-9
-
(2012)
Expert Opin Drug Discov
, vol.6
, Issue.10
, pp. 975-979
-
-
Chandra, N.1
-
10
-
-
0742305866
-
Network biology: Understanding the cell's functional organization
-
Barabasi AL, Oltvai ZN. Network biology: understanding the cell's functional organization. Nat Rev Genet 2004;5(2):101-13
-
(2004)
Nat Rev Genet
, vol.5
, Issue.2
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
11
-
-
34547146985
-
Network medicine-from obesity to the "diseasome"
-
Barabasi AL. Network medicine-from obesity to the "diseasome". N Engl J Med 2007;357(4):404-7
-
(2007)
N Engl J Med
, vol.357
, Issue.4
, pp. 404-407
-
-
Barabasi, A.L.1
-
13
-
-
84865077624
-
Network biology methods integrating biological data for translational science
-
Bebek G, Koyuturk M, Price ND, Chance MR. Network biology methods integrating biological data for translational science. Brief Bioinform 2012;13(4):446-59
-
(2012)
Brief Bioinform
, vol.13
, Issue.4
, pp. 446-459
-
-
Bebek, G.1
Koyuturk, M.2
Price, N.D.3
Chance, M.R.4
-
14
-
-
84860873858
-
Network medicine strikes a blow against breast cancer
-
Erler JT, Linding R. Network medicine strikes a blow against breast cancer. Cell 2012;149(4):731-3
-
(2012)
Cell
, vol.149
, Issue.4
, pp. 731-733
-
-
Erler, J.T.1
Linding, R.2
-
15
-
-
33947619951
-
Graph theory and networks in Biology
-
Mason O, Verwoerd M. Graph theory and networks in Biology. IET Syst Biol 2007;1(2):89-119
-
(2007)
IET Syst Biol
, vol.1
, Issue.2
, pp. 89-119
-
-
Mason, O.1
Verwoerd, M.2
-
16
-
-
77649182705
-
Unveiling the role of network and systems biology in drug discovery
-
Pujol A, Mosca R, Farres J, Aloy P. Unveiling the role of network and systems biology in drug discovery. Trends Pharmacol Sci 2010;31(3):115-23
-
(2010)
Trends Pharmacol Sci
, vol.31
, Issue.3
, pp. 115-123
-
-
Pujol, A.1
Mosca, R.2
Farres, J.3
Aloy, P.4
-
17
-
-
84862096201
-
Climate network structure evolves with North Atlantic Oscillation phases
-
Guez O, Gozolchiani A, Berezin Y, et al. Climate network structure evolves with North Atlantic Oscillation phases. EPL (Europhysics Letters) 2012;98(3):38006
-
(2012)
EPL (Europhysics Letters)
, vol.98
, Issue.3
, pp. 38006
-
-
Guez, O.1
Gozolchiani, A.2
Berezin, Y.3
-
18
-
-
54249083832
-
Drug-therapy networks and the prediction of novel drug targets
-
Spiro Z, Kovacs IA, Csermely P. Drug-therapy networks and the prediction of novel drug targets. J Biol 2008;7(6):20
-
(2008)
J Biol
, vol.7
, Issue.6
, pp. 20
-
-
Spiro, Z.1
Kovacs, I.A.2
Csermely, P.3
-
20
-
-
61649095940
-
Mycobacterium tuberculosis interactome analysis unravels potential pathways to drug resistance
-
Raman K, Chandra N. Mycobacterium tuberculosis interactome analysis unravels potential pathways to drug resistance. BMC Microbiol 2008;8:234
-
(2008)
BMC Microbiol
, vol.8
, pp. 234
-
-
Raman, K.1
Chandra, N.2
-
21
-
-
62449223765
-
TargetTB: A target identification pipeline for Mycobacterium tuberculosis through an interactome, reactome and genome-scale structural analysis
-
Raman K, Yeturu K, Chandra N. targetTB: a target identification pipeline for Mycobacterium tuberculosis through an interactome, reactome and genome-scale structural analysis. BMC Syst Biol 2008;2:109
-
(2008)
BMC Syst Biol
, vol.2
, pp. 109
-
-
Raman, K.1
Yeturu, K.2
Chandra, N.3
-
22
-
-
84255172340
-
Predicting adverse drug events using pharmacological network models
-
Cami A, Arnold A, Manzi S, Reis B. Predicting adverse drug events using pharmacological network models. Sci Transl Med 2011;3(114):114ra27
-
(2011)
Sci Transl Med
, vol.3
, Issue.114
-
-
Cami, A.1
Arnold, A.2
Manzi, S.3
Reis, B.4
-
23
-
-
47249146126
-
Drug target identification using side-effect similarity
-
Campillos M, Kuhn M, Gavin AC, et al. Drug target identification using side-effect similarity. Science 2008;321(5886):263-6
-
(2008)
Science
, vol.321
, Issue.5886
, pp. 263-266
-
-
Campillos, M.1
Kuhn, M.2
Gavin, A.C.3
-
24
-
-
15044349115
-
The efficiency of multi-target drugs: The network approach might help drug design
-
Csermely P, Agoston V, Pongor S. The efficiency of multi-target drugs: the network approach might help drug design. Trends Pharmacol Sci 2005;26(4):178-82
-
(2005)
Trends Pharmacol Sci
, vol.26
, Issue.4
, pp. 178-182
-
-
Csermely, P.1
Agoston, V.2
Pongor, S.3
-
26
-
-
84855906454
-
Systems pharmacology: Network analysis to identify multiscale mechanisms of drug action
-
Zhao S, Iyengar R. Systems pharmacology: network analysis to identify multiscale mechanisms of drug action. Annu Rev Pharmacol Toxicol 2012;52:505-21
-
(2012)
Annu Rev Pharmacol Toxicol
, vol.52
, pp. 505-521
-
-
Zhao, S.1
Iyengar, R.2
-
27
-
-
80052778724
-
Systems biology of tuberculosis
-
Chandra N, Kumar D, Rao K. Systems biology of tuberculosis. Tuberculosis 2011;91(5):487-96
-
(2011)
Tuberculosis
, vol.91
, Issue.5
, pp. 487-496
-
-
Chandra, N.1
Kumar, D.2
Rao, K.3
-
28
-
-
84860848426
-
Manual GO annotation of predictive protein signatures: The InterPro approach to GO curation
-
Burge S, Kelly E, Lonsdale D, et al. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Database (Oxford) 2012;bar068
-
(2012)
Database (Oxford)
-
-
Burge, S.1
Kelly, E.2
Lonsdale, D.3
-
29
-
-
78651324347
-
The STRING database in 2011: Functional interaction networks of proteins, globally integrated and scored
-
Database issue
-
Szklarczyk D, Franceschini A, Kuhn M, et al. The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res 2010;39(Database issue):D561-8
-
(2010)
Nucleic Acids Res
, vol.39
-
-
Szklarczyk, D.1
Franceschini, A.2
Kuhn, M.3
-
31
-
-
79952674000
-
Interactome networks and human disease
-
Vidal M, Cusick ME, Barabasi AL. Interactome networks and human disease. Cell 2011;144(6):986-98
-
(2011)
Cell
, vol.144
, Issue.6
, pp. 986-998
-
-
Vidal, M.1
Cusick, M.E.2
Barabasi, A.L.3
-
32
-
-
34247623628
-
Getting connected: Analysis and principles of biological networks
-
Zhu X, Gerstein M, Snyder M. Getting connected: analysis and principles of biological networks. Genes Dev 2007;21(9):1010-24
-
(2007)
Genes Dev
, vol.21
, Issue.9
, pp. 1010-1024
-
-
Zhu, X.1
Gerstein, M.2
Snyder, M.3
-
33
-
-
20844450402
-
Differential network expression during drug and stress response
-
Cabusora L, Sutton E, Fulmer A, Forst CV. Differential network expression during drug and stress response. Bioinformatics 2005;21(12):2898-905
-
(2005)
Bioinformatics
, vol.21
, Issue.12
, pp. 2898-2905
-
-
Cabusora, L.1
Sutton, E.2
Fulmer, A.3
Forst, C.V.4
-
34
-
-
68449088145
-
Human disease-drug network based on genomic expression profiles
-
Hu G, Agarwal P. Human disease-drug network based on genomic expression profiles. PLoS One 2009;4(8):e6536
-
(2009)
PLoS One
, vol.4
, Issue.8
-
-
Hu, G.1
Agarwal, P.2
-
35
-
-
41649119247
-
Protein networks in disease
-
Ideker T, Sharan R. Protein networks in disease. Genome Res 2008;18(4):644-52
-
(2008)
Genome Res
, vol.18
, Issue.4
, pp. 644-652
-
-
Ideker, T.1
Sharan, R.2
-
36
-
-
84858784781
-
Merging systems biology with pharmacodynamics
-
Iyengar R, Zhao S, Chung SW, et al. Merging systems biology with pharmacodynamics. Sci Transl Med 2012;4(126):126ps7
-
(2012)
Sci Transl Med
, vol.4
, Issue.126
-
-
Iyengar, R.1
Zhao, S.2
Chung, S.W.3
-
37
-
-
84855378129
-
NEW: Network-enabled wisdom in biology, medicine, and health care
-
Schadt EE, Bjorkegren JL. NEW: network-enabled wisdom in biology, medicine, and health care. Sci Transl Med 2012;4(115):115rv1
-
(2012)
Sci Transl Med
, vol.4
, Issue.115
-
-
Schadt, E.E.1
Bjorkegren, J.L.2
-
38
-
-
46249090791
-
Prediction of drug-target interaction networks from the integration of chemical and genomic spaces
-
Yamanishi Y, Araki M, Gutteridge A, et al. Prediction of drug-target interaction networks from the integration of chemical and genomic spaces. Bioinformatics 2008;24(13):i232-40
-
(2008)
Bioinformatics
, vol.24
, Issue.13
-
-
Yamanishi, Y.1
Araki, M.2
Gutteridge, A.3
-
39
-
-
54249155522
-
Network pharmacology: The next paradigm in drug discovery
-
Hopkins AL. Network pharmacology: the next paradigm in drug discovery. Nat Chem Biol 2008;4(11):682-90
-
(2008)
Nat Chem Biol
, vol.4
, Issue.11
, pp. 682-690
-
-
Hopkins, A.L.1
-
41
-
-
79958081747
-
Dosage suppression genetic interaction networks enhance functional wiring diagrams of the cell
-
Magtanong L, Ho CH, Barker SL, et al. Dosage suppression genetic interaction networks enhance functional wiring diagrams of the cell. Nat Biotechnol 2011;29(6):505-11
-
(2011)
Nat Biotechnol
, vol.29
, Issue.6
, pp. 505-511
-
-
Magtanong, L.1
Ho, C.H.2
Barker, S.L.3
-
42
-
-
75549090213
-
KEGG for representation and analysis of molecular networks involving diseases and drugs
-
Database issue
-
Kanehisa M, Goto S, Furumichi M, et al. KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res 2009;38(Database issue):D355-60
-
(2009)
Nucleic Acids Res
, vol.38
-
-
Kanehisa, M.1
Goto, S.2
Furumichi, M.3
-
43
-
-
78651275182
-
Reactome: A database of reactions, pathways and biological processes
-
Database issue
-
Croft D, O'Kelly G, Wu G, et al. Reactome: a database of reactions, pathways and biological processes. Nucleic Acids Res 2010;39(Database issue):D691-7
-
(2010)
Nucleic Acids Res
, vol.39
-
-
Croft, D.1
O'Kelly, G.2
Wu, G.3
-
44
-
-
80053904998
-
A network-based approach to classify the three domains of life
-
Mueller LA, Kugler KG, Netzer M, et al. A network-based approach to classify the three domains of life. Biol Direct 2011;6:53
-
(2011)
Biol Direct
, vol.6
, pp. 53
-
-
Mueller, L.A.1
Kugler, K.G.2
Netzer, M.3
-
45
-
-
77957044703
-
Discovery of drug mode of action and drug repositioning from transcriptional responses
-
Iorio F, Bosotti R, Scacheri E, et al. Discovery of drug mode of action and drug repositioning from transcriptional responses. Proc Natl Acad Sci USA 2010;107(33):14621-6
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, Issue.33
, pp. 14621-14626
-
-
Iorio, F.1
Bosotti, R.2
Scacheri, E.3
-
46
-
-
34147122065
-
Mendelian inheritance in man and its online version, OMIM
-
McKusick VA. Mendelian inheritance in man and its online version, OMIM. Am J Hum Genet 2007;80(4):588-604
-
(2007)
Am J Hum Genet
, vol.80
, Issue.4
, pp. 588-604
-
-
McKusick, V.A.1
-
47
-
-
73949157882
-
Network-based drugs and biomarkers
-
Erler JT, Linding R. Network-based drugs and biomarkers. J Pathol 2009;220(2):290-6
-
(2009)
J Pathol
, vol.220
, Issue.2
, pp. 290-296
-
-
Erler, J.T.1
Linding, R.2
-
48
-
-
79952635505
-
Principles and strategies for developing network models in cancer
-
Peer D, Hacohen N. Principles and strategies for developing network models in cancer. Cell 2011;144(6):864-73
-
(2011)
Cell
, vol.144
, Issue.6
, pp. 864-873
-
-
Peer, D.1
Hacohen, N.2
-
49
-
-
84885686036
-
Integrative analysis of common neurodegenerative diseases using gene association, interaction networks and mRNA expression data
-
Liu Y, Koyuturk M, Maxwell S, et al. Integrative analysis of common neurodegenerative diseases using gene association, interaction networks and mRNA expression data. AMIA Summits Transl Sci Proc 2012;2012:62-71
-
(2012)
AMIA Summits Transl Sci Proc
, vol.2012
, pp. 62-71
-
-
Liu, Y.1
Koyuturk, M.2
Maxwell, S.3
-
50
-
-
84861508376
-
STITCH 3: Zooming in on protein-chemical interactions
-
Database issue
-
Kuhn M, Szklarczyk D, Franceschini A, et al. STITCH 3: zooming in on protein-chemical interactions. Nucleic Acids Res 2012;40(Database issue):D876-80
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Kuhn, M.1
Szklarczyk, D.2
Franceschini, A.3
-
51
-
-
79960809682
-
Old friends in new guise: Repositioning of known drugs with structural bioinformatics
-
Haupt VJ, Schroeder M. Old friends in new guise: repositioning of known drugs with structural bioinformatics. Brief Bioinform 2011;12(4):312-26
-
(2011)
Brief Bioinform
, vol.12
, Issue.4
, pp. 312-326
-
-
Haupt, V.J.1
Schroeder, M.2
-
52
-
-
70449634957
-
Predicting new molecular targets for known drugs
-
Keiser MJ, Setola V, Irwin JJ, et al. Predicting new molecular targets for known drugs. Nature 2009;462(7270):175-81
-
(2009)
Nature
, vol.462
, Issue.7270
, pp. 175-181
-
-
Keiser, M.J.1
Setola, V.2
Irwin, J.J.3
-
53
-
-
84860851412
-
Sequential application of anticancer drugs enhances cell death by rewiring apoptotic signaling networks
-
Lee MJ, Ye AS, Gardino AK, et al. Sequential application of anticancer drugs enhances cell death by rewiring apoptotic signaling networks. Cell 2012;149(4):780-94
-
(2012)
Cell
, vol.149
, Issue.4
, pp. 780-794
-
-
Lee, M.J.1
Ye, A.S.2
Gardino, A.K.3
-
56
-
-
77954052283
-
Systems approaches to polypharmacology and drug discovery
-
Boran AD, Iyengar R. Systems approaches to polypharmacology and drug discovery. Curr Opin Drug Discov Devel 2010;13(3):297-309
-
(2010)
Curr Opin Drug Discov Devel
, vol.13
, Issue.3
, pp. 297-309
-
-
Boran, A.D.1
Iyengar, R.2
-
57
-
-
72849142731
-
Edgetic perturbation models of human inherited disorders
-
Zhong Q, Simonis N, Li QR, et al. Edgetic perturbation models of human inherited disorders. Mol Syst Biol 2009;5:321
-
(2009)
Mol Syst Biol
, vol.5
, pp. 321
-
-
Zhong, Q.1
Simonis, N.2
Li, Q.R.3
-
58
-
-
70349526350
-
Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases
-
Tan CS, Bodenmiller B, Pasculescu A, et al. Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases. Sci Signal 2009;2(81):ra39
-
(2009)
Sci Signal
, vol.2
, Issue.81
-
-
Tan, C.S.1
Bodenmiller, B.2
Pasculescu, A.3
-
59
-
-
79955562657
-
Network modeling of the transcriptional effects of copy number aberrations in glioblastoma
-
Jornsten R, Abenius T, Kling T, et al. Network modeling of the transcriptional effects of copy number aberrations in glioblastoma. Mol Syst Biol 2011;7:486
-
(2011)
Mol Syst Biol
, vol.7
, pp. 486
-
-
Jornsten, R.1
Abenius, T.2
Kling, T.3
-
60
-
-
4544312369
-
The transcriptional responses of Mycobacterium tuberculosis to inhibitors of metabolism: Novel insights into drug mechanisms of action
-
Boshoff HI, Myers TG, Copp BR, et al. The transcriptional responses of Mycobacterium tuberculosis to inhibitors of metabolism: novel insights into drug mechanisms of action. J Biol Chem 2004;279(38):40174-84
-
(2004)
J Biol Chem
, vol.279
, Issue.38
, pp. 40174-40184
-
-
Boshoff, H.I.1
Myers, T.G.2
Copp, B.R.3
-
61
-
-
77955894773
-
An interferon-inducible neutrophildriven blood transcriptional signature in human tuberculosis
-
Berry MP, Graham CM, McNab FW, et al. An interferon-inducible neutrophildriven blood transcriptional signature in human tuberculosis. Nature 2010;466(7309):973-7
-
(2010)
Nature
, vol.466
, Issue.7309
, pp. 973-977
-
-
Berry, M.P.1
Graham, C.M.2
McNab, F.W.3
-
62
-
-
35148824614
-
Network pharmacology
-
Hopkins AL. Network pharmacology. Nat Biotechnol 2007;25(10):1110-11
-
(2007)
Nat Biotechnol
, vol.25
, Issue.10
, pp. 1110-1111
-
-
Hopkins, A.L.1
-
63
-
-
79953209990
-
Protein-protein interaction networks suggest different targets have different propensities for triggering drug resistance
-
Padiadpu J, Vashisht R, Chandra N. Protein-protein interaction networks suggest different targets have different propensities for triggering drug resistance. Syst Synth Biol 2011;4(4):311-22
-
(2011)
Syst Synth Biol
, vol.4
, Issue.4
, pp. 311-322
-
-
Padiadpu, J.1
Vashisht, R.2
Chandra, N.3
-
64
-
-
59849125136
-
Dynamic modularity in protein interaction networks predicts breast cancer outcome
-
Taylor IW, Linding R, Warde-Farley D, et al. Dynamic modularity in protein interaction networks predicts breast cancer outcome. Nat Biotechnol 2009;27(2):199-204
-
(2009)
Nat Biotechnol
, vol.27
, Issue.2
, pp. 199-204
-
-
Taylor, I.W.1
Linding, R.2
Warde-Farley, D.3
-
65
-
-
77249117661
-
A systems perspective of host-pathogen interactions: Predicting disease outcome in tuberculosis
-
Raman K, Bhat AG, Chandra N. A systems perspective of host-pathogen interactions: predicting disease outcome in tuberculosis. Mol Biosyst 2010;6(3):516-30
-
(2010)
Mol Biosyst
, vol.6
, Issue.3
, pp. 516-530
-
-
Raman, K.1
Bhat, A.G.2
Chandra, N.3
-
67
-
-
80053649371
-
Prioritizing cancer-related genes with aberrant methylation based on a weighted protein-protein interaction network
-
Liu H, Su J, Li J, et al. Prioritizing cancer-related genes with aberrant methylation based on a weighted protein-protein interaction network. BMC Syst Biol 2011;5:R53
-
(2011)
BMC Syst Biol
, vol.5
-
-
Liu, H.1
Su, J.2
Li, J.3
-
68
-
-
77952310528
-
A human functional protein interaction network and its application to cancer data analysis
-
Wu G, Feng X, Stein L. A human functional protein interaction network and its application to cancer data analysis. Genome Biol 2010;11(5):R53
-
(2010)
Genome Biol
, vol.11
, Issue.5
-
-
Wu, G.1
Feng, X.2
Stein, L.3
-
69
-
-
84864138783
-
Chronic exposure to fine particles and mortality: An extended follow-up of the harvard six cities study from 1974 to 2009
-
Lepeule J, Laden F, Dockery D, Schwartz J. Chronic exposure to fine particles and mortality: an extended follow-up of the harvard six cities study from 1974 to 2009. Environ Health Perspect 2012;120(7):965-70
-
(2012)
Environ Health Perspect
, vol.120
, Issue.7
, pp. 965-970
-
-
Lepeule, J.1
Laden, F.2
Dockery, D.3
Schwartz, J.4
-
72
-
-
84860222515
-
Metabolic network analysis predicts efficacy of FDA-approved drugs targeting the causative agent of a neglected tropical disease
-
Chavali AK, Blazier AS, Tlaxca JL, et al. Metabolic network analysis predicts efficacy of FDA-approved drugs targeting the causative agent of a neglected tropical disease. BMC Syst Biol 2012;6:27
-
(2012)
BMC Syst Biol
, vol.6
, pp. 27
-
-
Chavali, A.K.1
Blazier, A.S.2
Tlaxca, J.L.3
-
73
-
-
72949105807
-
Strategies for efficient disruption of metabolism in Mycobacterium tuberculosis from network analysis
-
Raman K, Vashisht R, Chandra N. Strategies for efficient disruption of metabolism in Mycobacterium tuberculosis from network analysis. Mol Biosyst 2009;5(12):1740-51
-
(2009)
Mol Biosyst
, vol.5
, Issue.12
, pp. 1740-1751
-
-
Raman, K.1
Vashisht, R.2
Chandra, N.3
-
74
-
-
33747890136
-
Observing local and global properties of metabolic pathways'load points' and 'choke points' in the metabolic networks
-
Rahman SA, Schomburg D. Observing local and global properties of metabolic pathways: 'load points' and 'choke points' in the metabolic networks. Bioinformatics 2006;22(14):1767-74
-
(2006)
Bioinformatics
, vol.22
, Issue.14
, pp. 1767-1774
-
-
Rahman, S.A.1
Schomburg, D.2
-
75
-
-
84861863981
-
Molecular signaling network complexity is correlated with cancer patient survivability
-
Breitkreutz D, Hlatky L, Rietman E, Tuszynski JA. Molecular signaling network complexity is correlated with cancer patient survivability. Proc Natl Acad Sci USA 2012;109(23):9209-12
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, Issue.23
, pp. 9209-9212
-
-
Breitkreutz, D.1
Hlatky, L.2
Rietman, E.3
Tuszynski, J.A.4
-
76
-
-
77955480278
-
Revisiting date and party hubs: Novel approaches to role assignment in protein interaction networks
-
Agarwal S, Deane CM, Porter MA, Jones NS. Revisiting date and party hubs: novel approaches to role assignment in protein interaction networks. PLoS Comput Biol 2010;6(6):e1000817
-
(2010)
PLoS Comput Biol
, vol.6
, Issue.6
-
-
Agarwal, S.1
Deane, C.M.2
Porter, M.A.3
Jones, N.S.4
-
77
-
-
79551587720
-
Cytoscape 2.8: New features for data integration and network visualization
-
Smoot ME, Ono K, Ruscheinski J, et al. Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics 2011;2011;27(3):431-2
-
(2011)
Bioinformatics 2011
, vol.27
, Issue.3
, pp. 431-432
-
-
Smoot, M.E.1
Ono, K.2
Ruscheinski, J.3
-
78
-
-
44449159422
-
Quantifying the relationships among drug classes
-
Hert J, Keiser MJ, Irwin JJ, et al. Quantifying the relationships among drug classes. J Chem Inf Model 2008;48(4):755-65
-
(2008)
J Chem Inf Model
, vol.48
, Issue.4
, pp. 755-765
-
-
Hert, J.1
Keiser, M.J.2
Irwin, J.J.3
-
79
-
-
34547881522
-
Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma
-
Huang PH, Mukasa A, Bonavia R, et al. Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma. Proc Natl Acad Sci USA 2007;104(31):12867-72
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, Issue.31
, pp. 12867-12872
-
-
Huang, P.H.1
Mukasa, A.2
Bonavia, R.3
-
80
-
-
69849115198
-
Therapeutically targeting ErbB3: A key node in ligand-induced activation of the ErbB receptor-PI3K axis
-
Schoeberl B, Pace EA, Fitzgerald JB, et al. Therapeutically targeting ErbB3: a key node in ligand-induced activation of the ErbB receptor-PI3K axis. Sci Signal 2009;2(77):ra31
-
(2009)
Sci Signal
, vol.2
, Issue.77
-
-
Schoeberl, B.1
Pace, E.A.2
Fitzgerald, J.B.3
-
81
-
-
28844441230
-
A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis
-
Janes KA, Albeck JG, Gaudet S, et al. A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis. Science 2005;310(5754):1646-53
-
(2005)
Science
, vol.310
, Issue.5754
, pp. 1646-1653
-
-
Janes, K.A.1
Albeck, J.G.2
Gaudet, S.3
-
82
-
-
80855124963
-
Systematic exploration of synergistic drug pairs
-
Cokol M, Chua HN, Tasan M, et al. Systematic exploration of synergistic drug pairs. Mol Syst Biol 2011;7:544
-
(2011)
Mol Syst Biol
, vol.7
, pp. 544
-
-
Cokol, M.1
Chua, H.N.2
Tasan, M.3
-
83
-
-
79959199033
-
Network target for screening synergistic drug combinations with application to traditional Chinese medicine
-
Li S, Zhang B, Zhang N. Network target for screening synergistic drug combinations with application to traditional Chinese medicine. BMC Syst Biol 2010;5(Suppl 1):S10
-
(2010)
BMC Syst Biol
, vol.5
, Issue.SUPPL. 1
-
-
Li, S.1
Zhang, B.2
Zhang, N.3
-
84
-
-
72949101438
-
Structure and organization of drug-target networks: Insights from genomic approaches for drug discovery
-
Janga SC, Tzakos A. Structure and organization of drug-target networks: insights from genomic approaches for drug discovery. Mol Biosyst 2009;5(12):1536-48
-
(2009)
Mol Biosyst
, vol.5
, Issue.12
, pp. 1536-1548
-
-
Janga, S.C.1
Tzakos, A.2
-
85
-
-
84859858803
-
Drug discovery in the age of systems biology: The rise of computational approaches for data integration
-
Iskar M, Zeller G, Zhao XM, et al. Drug discovery in the age of systems biology: the rise of computational approaches for data integration. Curr Opin Biotechnol 2011;
-
(2011)
Curr Opin Biotechnol
-
-
Iskar, M.1
Zeller, G.2
Zhao, X.M.3
-
86
-
-
38549151817
-
DrugBank: A knowledgebase for drugs, drug actions and drug targets
-
Wishart DS, Knox C, Guo AC, et al. DrugBank: a knowledgebase for drugs, drug actions and drug targets. Nucleic Acids Res 2008;2008:36(Suppl 1):D901-D6
-
(2008)
Nucleic Acids Res
, vol.2008
, Issue.36 SUPPL. 1
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
-
87
-
-
34250777249
-
Network analysis of FDA approved drugs and their targets
-
Maayan A, Jenkins SL, Goldfarb J, Iyengar R. Network analysis of FDA approved drugs and their targets. Mt Sinai J Med 2007;74(1):27-32
-
(2007)
Mt Sinai J Med
, vol.74
, Issue.1
, pp. 27-32
-
-
Maayan, A.1
Jenkins, S.L.2
Goldfarb, J.3
Iyengar, R.4
-
88
-
-
79953212647
-
Reversescreen3d: A structure-based ligand matching method to identify protein targets
-
Kinnings SL, Jackson RM. Reversescreen3d: a structure-based ligand matching method to identify protein targets. J Chem Inf Model 2012;51(3):624-34
-
(2012)
J Chem Inf Model
, vol.51
, Issue.3
, pp. 624-634
-
-
Kinnings, S.L.1
Jackson, R.M.2
-
89
-
-
33749350447
-
Increased prevalence of dihydropyrimidine dehydrogenase deficiency in African-Americans compared with Caucasians
-
Mattison LK, Fourie J, Desmond RA, et al. Increased prevalence of dihydropyrimidine dehydrogenase deficiency in African-Americans compared with Caucasians. Clin Cancer Res 2006;12(18):5491-5
-
(2006)
Clin Cancer Res
, vol.12
, Issue.18
, pp. 5491-5495
-
-
Mattison, L.K.1
Fourie, J.2
Desmond, R.A.3
-
90
-
-
67049100457
-
Drug discovery using chemical systems biology: Identification of the protein-ligand binding network to explain the side effects of CETP inhibitors
-
Xie L, Li J, Bourne PE. Drug discovery using chemical systems biology: identification of the protein-ligand binding network to explain the side effects of CETP inhibitors. PLoS Comput Biol 2009;5(5):e1000387
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.5
-
-
Xie, L.1
Li, J.2
Bourne, P.E.3
-
91
-
-
84860918589
-
MINT, the molecular interaction database: 2012 update
-
Database issue
-
Licata L, Briganti L, Peluso D, et al. MINT, the molecular interaction database: 2012 update. Nucleic Acids Res 2012;40(Database issue):D857-61
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Licata, L.1
Briganti, L.2
Peluso, D.3
-
92
-
-
78651321625
-
PROMISCUOUS: A database for network-based drug-repositioning
-
Database issue
-
von Eichborn J, Murgueitio MS, Dunkel M, et al. PROMISCUOUS: a database for network-based drug-repositioning. Nucleic Acids Res 2010;39(Database issue):D1060-6
-
(2010)
Nucleic Acids Res
, vol.39
-
-
Von Eichborn, J.1
Murgueitio, M.S.2
Dunkel, M.3
-
93
-
-
68249144628
-
Drug discovery using chemical systems biology: Repositioning the safe medicine comtan to treat multi-drug and extensively drug resistant tuberculosis
-
Kinnings SL, Liu N, Buchmeier N, et al. Drug discovery using chemical systems biology: repositioning the safe medicine comtan to treat multi-drug and extensively drug resistant tuberculosis. PLoS Comput Biol 2009;5(7):e1000423
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.7
-
-
Kinnings, S.L.1
Liu, N.2
Buchmeier, N.3
-
94
-
-
79951967029
-
Principles of early drug discovery
-
Hughes JP, Rees S, Kalindjian SB, Philpott KL. Principles of early drug discovery. Br J Pharmacol 2011;162(6):1239-49
-
(2011)
Br J Pharmacol
, vol.162
, Issue.6
, pp. 1239-1249
-
-
Hughes, J.P.1
Rees, S.2
Kalindjian, S.B.3
Philpott, K.L.4
-
95
-
-
58549108388
-
Reconstruction of biochemical networks in microorganisms
-
Feist AM, Herrgard MJ, Thiele I, et al. Reconstruction of biochemical networks in microorganisms. Nat Rev Microbiol 2009;7(2):129-43
-
(2009)
Nat Rev Microbiol
, vol.7
, Issue.2
, pp. 129-143
-
-
Feist, A.M.1
Herrgard, M.J.2
Thiele, I.3
-
96
-
-
34047216368
-
Dynamic simulations on the arachidonic acid metabolic network
-
Yang K, Ma W, Liang H, et al. Dynamic simulations on the arachidonic acid metabolic network. PLoS Comput Biol 2007;3(3):e55
-
(2007)
PLoS Comput Biol
, vol.3
, Issue.3
-
-
Yang, K.1
Ma, W.2
Liang, H.3
-
97
-
-
37249065351
-
The molecular sociology of the cell
-
Robinson CV, Sali A, Baumeister W. The molecular sociology of the cell. Nature 2007;450(7172):973-82
-
(2007)
Nature
, vol.450
, Issue.7172
, pp. 973-982
-
-
Robinson, C.V.1
Sali, A.2
Baumeister, W.3
-
98
-
-
0036088133
-
DIP, the Database of Interacting Proteins: A research tool for studying cellular networks of protein interactions
-
Xenarios I, Salwinski L, Duan XJ, et al. DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res 2002;30(1):303-5
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.1
, pp. 303-305
-
-
Xenarios, I.1
Salwinski, L.2
Duan, X.J.3
-
99
-
-
20144387067
-
The MIPS mammalian protein-protein interaction database
-
Pagel P, Kovac S, Oesterheld M, et al. The MIPS mammalian protein-protein interaction database. Bioinformatics 2005;21(6):832-4
-
(2005)
Bioinformatics
, vol.21
, Issue.6
, pp. 832-834
-
-
Pagel, P.1
Kovac, S.2
Oesterheld, M.3
-
101
-
-
7244254458
-
HPID: The human protein interaction database
-
Han K, Park B, Kim H, et al. HPID: The human protein interaction database. Bioinformatics 2004;20(15):2466-70
-
(2004)
Bioinformatics
, vol.20
, Issue.15
, pp. 2466-2470
-
-
Han, K.1
Park, B.2
Kim, H.3
-
102
-
-
84859204939
-
The IntAct molecular interaction database in 2012
-
Database issue
-
Kerrien S, Aranda B, Breuza L, et al. The IntAct molecular interaction database in 2012. Nucleic Acids Res 2011;40(Database issue):D841-6
-
(2011)
Nucleic Acids Res
, vol.40
-
-
Kerrien, S.1
Aranda, B.2
Breuza, L.3
-
103
-
-
60549083544
-
An open access database of genome-wide association results
-
Johnson AD, O'Donnell CJ. An open access database of genome-wide association results. BMC Med Genet 2009;10:6
-
(2009)
BMC Med Genet
, vol.10
, pp. 6
-
-
Johnson, A.D.1
O'Donnell, C.J.2
-
104
-
-
78651330012
-
BRENDA, the enzyme information system in 2011
-
Database issue
-
Scheer M, Grote A, Chang A, et al. BRENDA, the enzyme information system in 2011. Nucleic Acids Res 2011;39(Database issue):D670-6
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Scheer, M.1
Grote, A.2
Chang, A.3
-
105
-
-
38549130733
-
STITCH: Interaction networks of chemicals and proteins
-
Database issue
-
Kuhn M, von Mering C, Campillos M, et al. STITCH: interaction networks of chemicals and proteins. Nucleic Acids Res 2008;36(Database issue):D684-8
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Kuhn, M.1
Von Mering, C.2
Campillos, M.3
-
106
-
-
84864199587
-
ZINC: A free tool to discover chemistry for biology
-
Irwin JJ, Sterling T, Mysinger MM, et al. ZINC: A Free Tool to Discover Chemistry for Biology. J Chem Inf Model 2012;52(7):1757-68
-
(2012)
J Chem Inf Model
, vol.52
, Issue.7
, pp. 1757-1768
-
-
Irwin, J.J.1
Sterling, T.2
Mysinger, M.M.3
-
107
-
-
84859487766
-
Context-specific protein network miner-an online system for exploring context-specific protein interaction networks from the literature
-
Chowdhary R, Tan SL, Zhang J, et al. Context-specific protein network miner-an online system for exploring context-specific protein interaction networks from the literature. PLoS One 2012;7(4):e34480
-
(2012)
PLoS One
, vol.7
, Issue.4
-
-
Chowdhary, R.1
Tan, S.L.2
Zhang, J.3
-
108
-
-
79958142858
-
Cobweb: A Java applet for network exploration and visualization
-
von Eichborn J, Bourne PE, Preissner R. Cobweb: a Java applet for network exploration and visualisation. Bioinformatics 2011;27(12):1725-6
-
(2011)
Bioinformatics
, vol.27
, Issue.12
, pp. 1725-1726
-
-
Von Eichborn, J.1
Bourne, P.E.2
Preissner, R.3
-
109
-
-
75249086155
-
NAViGaTOR: Network analysis, visualization and graphing toronto
-
Brown KR, Otasek D, Ali M, et al. NAViGaTOR: network analysis, visualization and graphing toronto. Bioinformatics 2009;25(24):3327-9
-
(2009)
Bioinformatics
, vol.25
, Issue.24
, pp. 3327-3329
-
-
Brown, K.R.1
Otasek, D.2
Ali, M.3
-
110
-
-
77949528929
-
Biana: A software framework for compiling biological interactions and analyzing networks
-
Garcia-Garcia J, Guney E, Aragues R, et al. Biana: a software framework for compiling biological interactions and analyzing networks. BMC Bioinformatics 2010;11:56
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 56
-
-
Garcia-Garcia, J.1
Guney, E.2
Aragues, R.3
-
111
-
-
65849350634
-
POINeT: Protein interactome with sub-network analysis and hub prioritization
-
Lee SA, Chan CH, Chen TC, et al. POINeT: protein interactome with sub-network analysis and hub prioritization. BMC Bioinformatics 2009;10:114
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 114
-
-
Lee, S.A.1
Chan, C.H.2
Chen, T.C.3
-
112
-
-
38349164409
-
Computing topological parameters of biological networks
-
Assenov Y, Ramirez F, Schelhorn SE, et al. Computing topological parameters of biological networks. Bioinformatics 2008;24(2):282-4
-
(2008)
Bioinformatics
, vol.24
, Issue.2
, pp. 282-284
-
-
Assenov, Y.1
Ramirez, F.2
Schelhorn, S.E.3
|