-
1
-
-
84856094560
-
Differential network biology
-
Ideker T, Krogan NJ. Differential network biology. Mol Syst Biol 2012, 8(565):565. [http://www.nature.com/doifinder/10.1038/msb.2011.99].
-
(2012)
Mol Syst Biol
, vol.8
, Issue.565
, pp. 565
-
-
Ideker, T.1
Krogan, N.J.2
-
2
-
-
79960588850
-
Functional integrative levels in the human interactome recapitulate organ organization
-
Souiai O, Becker E, Prieto C, Benkahla A, De Las Rivas J, Brun C. Functional integrative levels in the human interactome recapitulate organ organization. PLoS ONE 2011, 6(7):10. [http://dx.plos.org/10.1371/journal.pone.0022051].
-
(2011)
PLoS ONE
, vol.6
, Issue.7
, pp. 10
-
-
Souiai, O.1
Becker, E.2
Prieto, C.3
Benkahla, A.4
De Las Rivas, J.5
Brun, C.6
-
3
-
-
33646112925
-
Interactions in protein solutions
-
Sear R. Interactions in protein solutions. Curr Opin Colloid Interface Sci 2006, 11:35-39. [http://linkinghub.elsevier.com/retrieve/pii/S1359029405000610].
-
(2006)
Curr Opin Colloid Interface Sci
, vol.11
, pp. 35-39
-
-
Sear, R.1
-
4
-
-
0035970298
-
Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast
-
Park J, Lappe M, Teichmann SA. Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast. J Mol Biol 2001, 307(3):929-938. [http://www.ncbi.nlm.nih.gov/pubmed/11273711].
-
(2001)
J Mol Biol
, vol.307
, Issue.3
, pp. 929-938
-
-
Park, J.1
Lappe, M.2
Teichmann, S.A.3
-
5
-
-
0033518234
-
From molecular to modular cell biology
-
Hartwell LH, Hopfield JJ, Leibler S, Murray AW. From molecular to modular cell biology. Nature 1999, 402(6761 Suppl):C47-52. [http://www.ncbi.nlm.nih.gov/pubmed/10591225].
-
(1999)
Nature
, vol.402
, Issue.6761 SUPPL
-
-
Hartwell, L.H.1
Hopfield, J.J.2
Leibler, S.3
Murray, A.W.4
-
6
-
-
0034020583
-
Global properties of the metabolic map of Escherichia coli
-
Ouzounis CA, Karp PD. Global properties of the metabolic map of Escherichia coli. Genome Res 2000, 10(4):568-576. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=310896&tool=pmcentrez&rendertype=abstract].
-
(2000)
Genome Res
, vol.10
, Issue.4
, pp. 568-576
-
-
Ouzounis, C.A.1
Karp, P.D.2
-
7
-
-
0034175821
-
Gene regulation: Towards a circuit engineering discipline
-
McAdams HH, Arkin A. Gene regulation: Towards a circuit engineering discipline. Curr Biol 2000, 10(8):R318-R320. [http://linkinghub.elsevier.com/retrieve/pii/S0960982200004401].
-
(2000)
Curr Biol
, vol.10
, Issue.8
-
-
McAdams, H.H.1
Arkin, A.2
-
8
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
Elowitz MB, Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 2000, 403(6767):335-338. [http://dx.doi.org/10.1038/35002125].
-
(2000)
Nature
, vol.403
, Issue.6767
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
9
-
-
0035578429
-
Design principles for elementary gene circuits: Elements, methods, and examples
-
Savageau MA. Design principles for elementary gene circuits: Elements, methods, and examples. Chaos Woodbury Ny 2001, 11:142-159. [http://www.ncbi.nlm.nih.gov/pubmed/12779449].
-
(2001)
Chaos Woodbury Ny
, vol.11
, pp. 142-159
-
-
Savageau, M.A.1
-
10
-
-
0036901602
-
Modeling transcriptional regulatory networks
-
Bolouri H, Davidson EH. Modeling transcriptional regulatory networks. BioEssays 2002, 24(12):1118-1129. [http://www.ncbi.nlm.nih.gov/pubmed/12447977].
-
(2002)
BioEssays
, vol.24
, Issue.12
, pp. 1118-1129
-
-
Bolouri, H.1
Davidson, E.H.2
-
11
-
-
0035319006
-
Computational studies of gene regulatory networks: in numero molecular biology
-
Hasty J, McMillen D, Isaacs F, Collins JJ. Computational studies of gene regulatory networks: in numero molecular biology. Nat Rev Genet 2001, 2:268-279.
-
(2001)
Nat Rev Genet
, vol.2
, pp. 268-279
-
-
Hasty, J.1
McMillen, D.2
Isaacs, F.3
Collins, J.J.4
-
12
-
-
0037165942
-
Combinatorial synthesis of genetic networks
-
Guet CC, Elowitz MB, Hsing W, Leibler S. Combinatorial synthesis of genetic networks. Science 2002, 296(5572):1466-1470. [http://www.ncbi.nlm.nih.gov/pubmed/12029133].
-
(2002)
Science
, vol.296
, Issue.5572
, pp. 1466-1470
-
-
Guet, C.C.1
Elowitz, M.B.2
Hsing, W.3
Leibler, S.4
-
13
-
-
0038718854
-
The structure and function of complex networks
-
Newman MEJ. The structure and function of complex networks. SIAM Rev 2003, 45(2):58. [http://arxiv.org/abs/cond-mat/0303516].
-
(2003)
SIAM Rev
, vol.45
, Issue.2
, pp. 58
-
-
Newman, M.E.J.1
-
14
-
-
0142059836
-
Protein complexes and functional modules in molecular networks
-
Spirin V, Mirny LA. Protein complexes and functional modules in molecular networks. Proc Nat Acad Sci USA 2003, 100(21):12123-12128. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=218723&tool=pmcentrez&rendertype=abstract].
-
(2003)
Proc Nat Acad Sci USA
, vol.100
, Issue.21
, pp. 12123-12128
-
-
Spirin, V.1
Mirny, L.A.2
-
15
-
-
84865968015
-
Detection of protein complexes using a protein ranking algorithm
-
Zaki N, Berengueres J, Efimov D. Detection of protein complexes using a protein ranking algorithm. Proteins 2012, 80(10):2459-68. [http://www.ncbi.nlm.nih.gov/pubmed/22685080].
-
(2012)
Proteins
, vol.80
, Issue.10
, pp. 2459-2468
-
-
Zaki, N.1
Berengueres, J.2
Efimov, D.3
-
16
-
-
84877859040
-
Protein complex detection using interaction reliability assessment and weighted clustering coefficient
-
Zaki N, Efimov D, Berengueres J. Protein complex detection using interaction reliability assessment and weighted clustering coefficient. BMC Bioinformatics 2013, 14:163. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3680028&tool=pmcentrez&rendertype=abstract].
-
(2013)
BMC Bioinformatics
, vol.14
, pp. 163
-
-
Zaki, N.1
Efimov, D.2
Berengueres, J.3
-
17
-
-
74549134502
-
Human cancer protein-protein interaction network: a structural perspective
-
Kar G, Gursoy A, Keskin O. Human cancer protein-protein interaction network: a structural perspective. PLoS Comput Biol 2009, 5(12):e1000601.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.12
-
-
Kar, G.1
Gursoy, A.2
Keskin, O.3
-
18
-
-
34547672876
-
Assessing significance of connectivity and conservation in protein interaction networks
-
Koyutürk M, Szpankowski W, Grama A. Assessing significance of connectivity and conservation in protein interaction networks. J Comput Biol 2007, 14(6):747-764.
-
(2007)
J Comput Biol
, vol.14
, Issue.6
, pp. 747-764
-
-
Koyutürk, M.1
Szpankowski, W.2
Grama, A.3
-
19
-
-
33748202182
-
Functional clustering of yeast proteins from the protein-protein interaction network
-
Sen TZ, Kloczkowski A, Jernigan RL. Functional clustering of yeast proteins from the protein-protein interaction network. BMC Bioinformatics 2006, 7:355. [http://www.biomedcentral.com/1471-2105/12/409].
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 355
-
-
Sen, T.Z.1
Kloczkowski, A.2
Jernigan, R.L.3
-
20
-
-
48249097433
-
The topology of the bacterial co-conserved protein network and its implications for predicting protein function
-
Karimpour-Fard A, Leach SM, Hunter LE, Gill RT. The topology of the bacterial co-conserved protein network and its implications for predicting protein function. BMC Genomics 2008, 9:313. [http://www.ncbi.nlm.nih.gov/pubmed/18590549].
-
(2008)
BMC Genomics
, vol.9
, pp. 313
-
-
Karimpour-Fard, A.1
Leach, S.M.2
Hunter, L.E.3
Gill, R.T.4
-
21
-
-
77949728012
-
Toponomics: studying protein-protein interactions and protein networks in intact tissue
-
Pierre S, Scholich K. Toponomics: studying protein-protein interactions and protein networks in intact tissue. Mol Biosyst 2010, 6(4):641-647. [http://www.ncbi.nlm.nih.gov/pubmed/20237641].
-
(2010)
Mol Biosyst
, vol.6
, Issue.4
, pp. 641-647
-
-
Pierre, S.1
Scholich, K.2
-
22
-
-
0035799707
-
Lethality and centrality in protein networks
-
Jeong H, Mason S, Barabasi A, Oltvai Z. Lethality and centrality in protein networks. Nature 2001, 411(6833):41-42. [http://www.ncbi.nlm.nih.gov/pubmed/11333967].
-
(2001)
Nature
, vol.411
, Issue.6833
, pp. 41-42
-
-
Jeong, H.1
Mason, S.2
Barabasi, A.3
Oltvai, Z.4
-
23
-
-
50949092459
-
Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentiality
-
Zotenko E, Mestre J, O'Leary D, Przytycka T. Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentiality. PLoS Comput Biol 2008, 4(8):e1000140.
-
(2008)
PLoS Comput Biol
, vol.4
, Issue.8
-
-
Zotenko, E.1
Mestre, J.2
O'Leary, D.3
Przytycka, T.4
-
24
-
-
33745712594
-
Why do hubs tend to be essential in protein networks?
-
He X, Zhang J. Why do hubs tend to be essential in protein networks?. PLoS Genet 2006, 2(6):e88.
-
(2006)
PLoS Genet
, vol.2
, Issue.6
-
-
He, X.1
Zhang, J.2
-
26
-
-
80855134313
-
Defining the Role of Essential Genes in Human Disease
-
Dickerson JE, Zhu A, Robertson DL, Hentges KE. Defining the Role of Essential Genes in Human Disease. PLoS ONE 2011, 6(11):e27368. [http://dx.doi.org/10.1371/journal.pone.0027368].
-
(2011)
PLoS ONE
, vol.6
, Issue.11
-
-
Dickerson, J.E.1
Zhu, A.2
Robertson, D.L.3
Hentges, K.E.4
-
27
-
-
34547140875
-
The human disease network
-
Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabási AL. The human disease network. Proc Nat Acad Sci USA 2007, 104(21):8685-8690. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1885563&tool=pmcentrez&rendertype=abstract].
-
(2007)
Proc Nat Acad Sci USA
, vol.104
, Issue.21
, pp. 8685-8690
-
-
Goh, K.I.1
Cusick, M.E.2
Valle, D.3
Childs, B.4
Vidal, M.5
Barabási, A.L.6
-
28
-
-
77952961276
-
Network properties of human disease genes with pleiotropic effects
-
Chavali S, Barrenas F, Kanduri K, Benson M. Network properties of human disease genes with pleiotropic effects. BMC Syst Biol 2010, 4:78. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2892460&tool=pmcentrez&rendertype=abstract].
-
(2010)
BMC Syst Biol
, vol.4
, pp. 78
-
-
Chavali, S.1
Barrenas, F.2
Kanduri, K.3
Benson, M.4
-
29
-
-
44449119819
-
A protein interaction network associated with asthma
-
Hwang S, Son SW, Kim SC, Kim YJ, Jeong H, Lee D. A protein interaction network associated with asthma. J Theor Biol 2008, 252(4):722-731. [http://www.ncbi.nlm.nih.gov/pubmed/18395227].
-
(2008)
J Theor Biol
, vol.252
, Issue.4
, pp. 722-731
-
-
Hwang, S.1
Son, S.W.2
Kim, S.C.3
Kim, Y.J.4
Jeong, H.5
Lee, D.6
-
30
-
-
57249114512
-
Modularity of cellular networks shows general center-periphery polarization
-
Vinogradov AE. Modularity of cellular networks shows general center-periphery polarization. Bioinformatics 2008, 24(24):2814-2817. [http://www.ncbi.nlm.nih.gov/pubmed/18953046].
-
(2008)
Bioinformatics
, vol.24
, Issue.24
, pp. 2814-2817
-
-
Vinogradov, A.E.1
-
31
-
-
67650270380
-
Identifying drug-target proteins based on network features
-
Zhu M, Gao L, Li X, Liu Z. Identifying drug-target proteins based on network features. Sci China Series C Life Sci Chin Acad Sci 2009, 52(4):398-404. [http://www.ncbi.nlm.nih.gov/pubmed/19381466].
-
(2009)
Sci China Series C Life Sci Chin Acad Sci
, vol.52
, Issue.4
, pp. 398-404
-
-
Zhu, M.1
Gao, L.2
Li, X.3
Liu, Z.4
-
32
-
-
84892473115
-
Protein interaction networks as metric spaces: a novel perspective on distribution of hubs
-
Fadhal E, Gamieldien J, Mwambene EC. Protein interaction networks as metric spaces: a novel perspective on distribution of hubs. BMC Syst Biol 2014, 8:6.
-
(2014)
BMC Syst Biol
, vol.8
, pp. 6
-
-
Fadhal, E.1
Gamieldien, J.2
Mwambene, E.C.3
-
33
-
-
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
-
34
-
-
84863547465
-
The human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer
-
Li L, Tibiche C, Fu C, Kaneko T, Moran MF, Schiller MR, Li SS, Wang E. The human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer. Genome Res 2012, 22(7):1222-1230.
-
(2012)
Genome Res
, vol.22
, Issue.7
, pp. 1222-1230
-
-
Li, L.1
Tibiche, C.2
Fu, C.3
Kaneko, T.4
Moran, M.F.5
Schiller, M.R.6
Li, S.S.7
Wang, E.8
-
35
-
-
34548408283
-
Regulatory network motifs and hotspots of cancer genes in a mammalian cellular signalling network
-
Awan A, Bari H, Yan F, Moksong S, Yang S, Chowdhury S, Cui Q, Yu Z, Purisima EO, Wang E. Regulatory network motifs and hotspots of cancer genes in a mammalian cellular signalling network. IET Syst Biol 2007, 1(5):292-297.
-
(2007)
IET Syst Biol
, vol.1
, Issue.5
, pp. 292-297
-
-
Awan, A.1
Bari, H.2
Yan, F.3
Moksong, S.4
Yang, S.5
Chowdhury, S.6
Cui, Q.7
Yu, Z.8
Purisima, E.O.9
Wang, E.10
-
36
-
-
77957667140
-
A human MAP kinase interactome
-
Bandyopadhyay S, Chiang CY, Srivastava J, Gersten M, White S, Bell R, Kurschner C, Martin CH, Smoot M, Sahasrabudhe S, Barber DL, Chanda SK, Ideker T. A human MAP kinase interactome. Nat Methods 2010, 7(10):801-5. [http://www.ncbi.nlm.nih.gov/pubmed/20936779].
-
(2010)
Nat Methods
, vol.7
, Issue.10
, pp. 801-805
-
-
Bandyopadhyay, S.1
Chiang, C.Y.2
Srivastava, J.3
Gersten, M.4
White, S.5
Bell, R.6
Kurschner, C.7
Martin, C.H.8
Smoot, M.9
Sahasrabudhe, S.10
Barber, D.L.11
Chanda, S.K.12
Ideker, T.13
-
37
-
-
9244222261
-
Targeted cancer therapy
-
Sawyers C. Targeted cancer therapy. Nature 2004, 432(7015):294-7. [http://www.ncbi.nlm.nih.gov/pubmed/15549090].
-
(2004)
Nature
, vol.432
, Issue.7015
, pp. 294-297
-
-
Sawyers, C.1
-
38
-
-
84984763775
-
Signal transduction as a drug-discovery platform Mapping the key signaling molecules in biochemical pathways will be central
-
Pharmaceuticals A, Pharmaceuticals K. Signal transduction as a drug-discovery platform Mapping the key signaling molecules in biochemical pathways will be central. Nature Biotechnol 2000, VOL 18(3):37-39.
-
(2000)
Nature Biotechnol
, vol.18
, Issue.3
, pp. 37-39
-
-
Pharmaceuticals, A.1
Pharmaceuticals, K.2
-
39
-
-
84859699832
-
Disease Ontology: a backbone for disease semantic integration
-
D940-6
-
Schriml LM, Arze C, Nadendla S, Chang YWW, Mazaitis M, Felix V, Feng G, Kibbe WA. Disease Ontology: a backbone for disease semantic integration. Nucleic Acids Res 2012, 40(Database issue):D940-6. [].
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.DATABASE ISSUE
-
-
Schriml, L.M.1
Arze, C.2
Nadendla, S.3
Chang, Y.W.W.4
Mazaitis, M.5
Felix, V.6
Feng, G.7
Kibbe, W.A.8
-
40
-
-
84875490185
-
The Cancer genome landscapes
-
Vogelstein B, Papadopoulos N, Velculescu VE, Zhou S, Diaz LA, Kinzler KW. The Cancer genome landscapes. Science New York NY 2013, 339(6127):1546-58. [http://www.ncbi.nlm.nih.gov/pubmed/23539594].
-
(2013)
Science New York NY
, vol.339
, Issue.6127
, pp. 1546-1558
-
-
Vogelstein, B.1
Papadopoulos, N.2
Velculescu, V.E.3
Zhou, S.4
Diaz, L.A.5
Kinzler, K.W.6
-
41
-
-
84859267371
-
Therapeutic target database update 2012: a resource for facilitating target-oriented drug discovery
-
D1128-36
-
Zhu F, Shi Z, Qin C, Tao L, Liu X, Xu F, Zhang L, Song Y, Liu X, Zhang J, Han B, Zhang P, Chen Y. Therapeutic target database update 2012: a resource for facilitating target-oriented drug discovery. Nucleic Acids Res 2012, 40(Database issue):D1128-36. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3245130&tool=pmcentrez&rendertype=abstract].
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.DATABASE ISSUE
-
-
Zhu, F.1
Shi, Z.2
Qin, C.3
Tao, L.4
Liu, X.5
Xu, F.6
Zhang, L.7
Song, Y.8
Liu, X.9
Zhang, J.10
Han, B.11
Zhang, P.12
Chen, Y.13
-
42
-
-
75549090213
-
KEGG for representation and analysis of molecular networks involving diseases and drugs
-
Kanehisa M, Goto S, Furumichi M, Tanabe M, Hirakawa M. KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res 2010, 38(suppl 1):D355-D360.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.SUPPL. 1
-
-
Kanehisa, M.1
Goto, S.2
Furumichi, M.3
Tanabe, M.4
Hirakawa, M.5
|