-
2
-
-
0034721164
-
Error and attack tolerance of complex networks
-
Albert R, Jeong H, Barabasi AL (2000) Error and attack tolerance of complex networks. Nature 406: 378-382.
-
(2000)
Nature
, vol.406
, pp. 378-382
-
-
Albert, R.1
Jeong, H.2
Barabasi, A.L.3
-
3
-
-
0038483826
-
Emergence of scaling in random networks
-
Barabasi AL, Albert R (1999) Emergence of scaling in random networks. Science 286: 509.
-
(1999)
Science
, vol.286
, pp. 509
-
-
Barabasi, A.L.1
Albert, R.2
-
4
-
-
0742305866
-
Network biology: Understanding the cell's functional organization
-
Barabasi AL, Oltvai ZN (2004) Network biology: understanding the cell's functional organization. Nat Rev Genet 5(2): 101-13.
-
(2004)
Nat Rev Genet
, vol.5
, Issue.2
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
6
-
-
85142142510
-
-
Przulj N, Wigle DA, Jurisica I (2004) Functional topology in a network of protein interactions. Bioinformatics. 12;20(3): 340-8.
-
Przulj N, Wigle DA, Jurisica I (2004) Functional topology in a network of protein interactions. Bioinformatics. 12;20(3): 340-8.
-
-
-
-
7
-
-
15444372528
-
-
Stumpf MP, Wiuf C, May RM (2005) Subnets of scale-free networks are not scale-free: sampling properties of networks. Proc Natl Acad Sci U S A. 22;102(12): 4221-4.
-
Stumpf MP, Wiuf C, May RM (2005) Subnets of scale-free networks are not scale-free: sampling properties of networks. Proc Natl Acad Sci U S A. 22;102(12): 4221-4.
-
-
-
-
8
-
-
0346245913
-
On the structure of protein-protein interaction networks
-
Thomas A, Cannings R, Monk NA, Cannings C (2003) On the structure of protein-protein interaction networks. Biochem Soc Trans. 31(Pt 6): 1491-6.
-
(2003)
Biochem Soc Trans
, vol.31
, Issue.PART 6
, pp. 1491-1496
-
-
Thomas, A.1
Cannings, R.2
Monk, N.A.3
Cannings, C.4
-
9
-
-
24944442468
-
Effect of sampling on topology predictions of protein-protein interaction networks
-
Han JD, Dupuy D, Bertin N, Cusick ME, Vidal M (2005) Effect of sampling on topology predictions of protein-protein interaction networks. Nat Biotechnol. 23(7): 839-44.
-
(2005)
Nat Biotechnol
, vol.23
, Issue.7
, pp. 839-844
-
-
Han, J.D.1
Dupuy, D.2
Bertin, N.3
Cusick, M.E.4
Vidal, M.5
-
10
-
-
3042848952
-
Evidence for dynamically organized modularity in the yeast protein-protein interaction network
-
Han JD, Bertin N, Hao T, Goldberg DS, Berriz GF, et al. (2004) Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature 430: 88-93.
-
(2004)
Nature
, vol.430
, pp. 88-93
-
-
Han, J.D.1
Bertin, N.2
Hao, T.3
Goldberg, D.S.4
Berriz, G.F.5
-
11
-
-
33750238153
-
Stratus not altocumulus: A new view of the yeast protein interaction network
-
Batada NN, Reguly T, Breitkreutz A, Boucher L, Breitkreutz BJ, et al. (2006) Stratus not altocumulus: A new view of the yeast protein interaction network. PLoS Biol 4(10): e317.
-
(2006)
PLoS Biol
, vol.4
, Issue.10
-
-
Batada, N.N.1
Reguly, T.2
Breitkreutz, A.3
Boucher, L.4
Breitkreutz, B.J.5
-
12
-
-
33745686603
-
What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae?
-
Ekman D, Light S, Bjorklund AK, Elofsson A (2006) What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae? Genome Biol 7: R45.
-
(2006)
Genome Biol
, vol.7
-
-
Ekman, D.1
Light, S.2
Bjorklund, A.K.3
Elofsson, A.4
-
13
-
-
33745712594
-
-
He X, Zhang J (2006) Why do hubs tend to be essential in protein networks? PLoS Genet 2(6): 0868-0834.
-
He X, Zhang J (2006) Why do hubs tend to be essential in protein networks? PLoS Genet 2(6): 0868-0834.
-
-
-
-
14
-
-
33746631391
-
Evolutionary and physiological importance of hub proteins
-
Batada NN, Hurst LD, Tyers M (2006) Evolutionary and physiological importance of hub proteins. PLoS Comput Biol 2(7): e88.
-
(2006)
PLoS Comput Biol
, vol.2
, Issue.7
-
-
Batada, N.N.1
Hurst, L.D.2
Tyers, M.3
-
15
-
-
0037012880
-
Specificity and stability in topology of protein networks
-
Maslov S, Sneppen K (2002) Specificity and stability in topology of protein networks. Science 296: 910-913.
-
(2002)
Science
, vol.296
, pp. 910-913
-
-
Maslov, S.1
Sneppen, K.2
-
17
-
-
0037174670
-
Network Motifs: Simple Building Blocks of Complex Networks
-
Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovakii D, et al. (2002) Network Motifs: Simple Building Blocks of Complex Networks. Science 298: 824-827.
-
(2002)
Science
, vol.298
, pp. 824-827
-
-
Milo, R.1
Shen-Orr, S.2
Itzkovitz, S.3
Kashtan, N.4
Chklovakii, D.5
-
18
-
-
1542287343
-
Superfamilies of designed and evolved networks
-
Milo R, Itzkovitz S, Kashtan N, Levitt R, Shen-Orr S, et al. (2004) Superfamilies of designed and evolved networks. Science 303: 1538-42.
-
(2004)
Science
, vol.303
, pp. 1538-1542
-
-
Milo, R.1
Itzkovitz, S.2
Kashtan, N.3
Levitt, R.4
Shen-Orr, S.5
-
19
-
-
0036578795
-
Network motifs in the transcriptional regulation network of Escherichia coli
-
Shen-Orr S, Milo R, Mangan S, Alon U (2002) Network motifs in the transcriptional regulation network of Escherichia coli. Nat Genet 31: 64-68.
-
(2002)
Nat Genet
, vol.31
, pp. 64-68
-
-
Shen-Orr, S.1
Milo, R.2
Mangan, S.3
Alon, U.4
-
21
-
-
0242364231
-
The Coherent Feedforward Loop Serves as a Sign-sensitive Delay Element in Transcription
-
Mangan S, Zaslaver A, Alon U (2003) The Coherent Feedforward Loop Serves as a Sign-sensitive Delay Element in Transcription Networks. JMB 334/2: 197-204.
-
(2003)
Networks
, vol.JMB 334 2
, pp. 197-204
-
-
Mangan, S.1
Zaslaver, A.2
Alon, U.3
-
22
-
-
85032751721
-
A systems biology perspective on signal processing in genetic motifs
-
Li C, Chen L, Aihara K (2007) A systems biology perspective on signal processing in genetic motifs. IEEE Signal Proc Mag, 24: 136-147.
-
(2007)
IEEE Signal Proc Mag
, vol.24
, pp. 136-147
-
-
Li, C.1
Chen, L.2
Aihara, K.3
-
23
-
-
33745998748
-
Are network motifs the spandrels of cellular complexity?
-
Sole RM, Valverde S (2006) Are network motifs the spandrels of cellular complexity? Trends Ecol Evol 21: 419-422.
-
(2006)
Trends Ecol Evol
, vol.21
, pp. 419-422
-
-
Sole, R.M.1
Valverde, S.2
-
24
-
-
20344379457
-
-
Balazsi G, Barabasi AL, Oltvai ZN (2005) Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli. Proc Natl Acad Sci U S A. 31;102(22): 7841-6.
-
Balazsi G, Barabasi AL, Oltvai ZN (2005) Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli. Proc Natl Acad Sci U S A. 31;102(22): 7841-6.
-
-
-
-
25
-
-
0035836765
-
A comprehensive two-hybrid analysis to explore the yeast protein interactome
-
Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, et al. (2001) A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci U S A 98: 4569-4574.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, pp. 4569-4574
-
-
Ito, T.1
Chiba, T.2
Ozawa, R.3
Yoshida, M.4
Hattori, M.5
-
26
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
Uetz P, Giot L, Cagney G, Mansfield TA, Judson RS, et al. (2000) A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403: 623-627.
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.A.4
Judson, R.S.5
-
27
-
-
33644555054
-
Proteome survey reveals modularity of the yeast cell machinery
-
Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, et al. (2006) Proteome survey reveals modularity of the yeast cell machinery. Nature 440: 631-637.
-
(2006)
Nature
, vol.440
, pp. 631-637
-
-
Gavin, A.C.1
Aloy, P.2
Grandi, P.3
Krause, R.4
Boesche, M.5
-
28
-
-
33645453254
-
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae
-
Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, et al. (2006) Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440: 637-644.
-
(2006)
Nature
, vol.440
, pp. 637-644
-
-
Krogan, N.J.1
Cagney, G.2
Yu, H.3
Zhong, G.4
Guo, X.5
-
29
-
-
0031736099
-
MAP kinase pathways in the yeast Saccharomyces cerevisiae
-
Gustin MC, Albertyn J, Alexander M, Davenport K (1998) MAP kinase pathways in the yeast Saccharomyces cerevisiae. Microbiol Mol Biol Rev 62(4): 1264-300.
-
(1998)
Microbiol Mol Biol Rev
, vol.62
, Issue.4
, pp. 1264-1300
-
-
Gustin, M.C.1
Albertyn, J.2
Alexander, M.3
Davenport, K.4
-
30
-
-
0028985079
-
MAP kinase pathways in yeast: For mating and more
-
Herskowitz I (1995) MAP kinase pathways in yeast: for mating and more. Cell 80(2): 187-97.
-
(1995)
Cell
, vol.80
, Issue.2
, pp. 187-197
-
-
Herskowitz, I.1
-
31
-
-
0037716676
-
Building with a scaffold: Emerging strategies for high- to low-level cellular modeling
-
Ideker T, Lauffenburger D (2003) Building with a scaffold: emerging strategies for high- to low-level cellular modeling. Trends Biotechnol 21: 255-262.
-
(2003)
Trends Biotechnol
, vol.21
, pp. 255-262
-
-
Ideker, T.1
Lauffenburger, D.2
-
32
-
-
33749199129
-
Genome-wide protein interaction screens reveal functional networks involving Sm-like proteins
-
Fromont-Racine M, Mayes AE, Brunet-Simon A, Rain JC, Colley A, et al. (2000) Genome-wide protein interaction screens reveal functional networks involving Sm-like proteins. Yeast 17: 95-110.
-
(2000)
Yeast
, vol.17
, pp. 95-110
-
-
Fromont-Racine, M.1
Mayes, A.E.2
Brunet-Simon, A.3
Rain, J.C.4
Colley, A.5
-
33
-
-
0030963019
-
Toward a functional analysis of the yeast genome through exhaustive two-hybrid screens
-
Fromont-Racine M, Rain JC, Legrain P (1997) Toward a functional analysis of the yeast genome through exhaustive two-hybrid screens. Nature Genet 16: 277-282.
-
(1997)
Nature Genet
, vol.16
, pp. 277-282
-
-
Fromont-Racine, M.1
Rain, J.C.2
Legrain, P.3
-
34
-
-
0037050004
-
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
-
Ho Y, Gruhler A, Heilbut A, Bader GD, Moore L, et al. (2002) Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415: 180-183.
-
(2002)
Nature
, vol.415
, pp. 180-183
-
-
Ho, Y.1
Gruhler, A.2
Heilbut, A.3
Bader, G.D.4
Moore, L.5
-
35
-
-
0037050026
-
Functional organization of the yeast proteomic by systematic analysis of protein complexes
-
Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, et al. (2002) Functional organization of the yeast proteomic by systematic analysis of protein complexes. Nature 415: 141-147.
-
(2002)
Nature
, vol.415
, pp. 141-147
-
-
Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
-
36
-
-
0037245913
-
BIND: The Biomolecular Interaction Network Database
-
Bader GD, Betel D, Hogue CW (2003) BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res 31: 248-250.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 248-250
-
-
Bader, G.D.1
Betel, D.2
Hogue, C.W.3
-
37
-
-
0037161731
-
Comparative assessment of large-scale data sets of proteinCprotein interactions
-
von Mering C, Krause R, Snel B, Cornell M, Oliver SG, et al. (2002) Comparative assessment of large-scale data sets of proteinCprotein interactions. Nature 417: 399-403.
-
(2002)
Nature
, vol.417
, pp. 399-403
-
-
von Mering, C.1
Krause, R.2
Snel, B.3
Cornell, M.4
Oliver, S.G.5
-
38
-
-
0033523854
-
A combined algorithm for genome-wide prediction of protein function
-
Marcotte EM, Pellegrini M, Thompson MJ, Yeates TO, Eisenberg D (1999) A combined algorithm for genome-wide prediction of protein function. Nature 402: 83-86.
-
(1999)
Nature
, vol.402
, pp. 83-86
-
-
Marcotte, E.M.1
Pellegrini, M.2
Thompson, M.J.3
Yeates, T.O.4
Eisenberg, D.5
-
39
-
-
0032169271
-
Conservation of gene order: A fingerprint of proteins that physically interact
-
Dandekar T, Snel B, Huynen M, Bork P (1998) Conservation of gene order: a fingerprint of proteins that physically interact. Trends Biochem Sci 23: 324-328.
-
(1998)
Trends Biochem Sci
, vol.23
, pp. 324-328
-
-
Dandekar, T.1
Snel, B.2
Huynen, M.3
Bork, P.4
-
40
-
-
0036081347
-
MIPS: A database for genomes and protein sequences
-
Mewes HW, Frishman D, Guldener U, Mannhaupt G, Mayer K, et al. (2002) MIPS: a database for genomes and protein sequences. Nucleic Acids Res 30: 31-34.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 31-34
-
-
Mewes, H.W.1
Frishman, D.2
Guldener, U.3
Mannhaupt, G.4
Mayer, K.5
-
41
-
-
33847064282
-
Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
-
Reguly T, Breitkreutz A, Boucher L, Breitkreutz BJ, Hon GC, et al. (2006) Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae. J Biol 5: 11.
-
(2006)
J Biol
, vol.5
, pp. 11
-
-
Reguly, T.1
Breitkreutz, A.2
Boucher, L.3
Breitkreutz, B.J.4
Hon, G.C.5
-
42
-
-
0033971642
-
DIP: The database of interacting proteins
-
Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM, et al. (2000) DIP: The database of interacting proteins. Nucleic Acids Res 28: 289-291.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 289-291
-
-
Xenarios, I.1
Rice, D.W.2
Salwinski, L.3
Baron, M.K.4
Marcotte, E.M.5
-
43
-
-
0037138406
-
-
Zanzoni A, Montecchi-Palazzi L, Quondam M, Ausiello G, Helmer-Citterich M, et al. (2002) MINT: a Molecular INTeraction database. FEBS Lett. 20;513(1): 135-40.
-
Zanzoni A, Montecchi-Palazzi L, Quondam M, Ausiello G, Helmer-Citterich M, et al. (2002) MINT: a Molecular INTeraction database. FEBS Lett. 20;513(1): 135-40.
-
-
-
-
44
-
-
33644874819
-
From genomics to chemical genomics: New devel-opments in KEGG
-
Kanehisa M, Goto S, Hattori M, Aoki-Kinoshita KF, Itoh M, et al. (2006) From genomics to chemical genomics: new devel-opments in KEGG. Nucleic Acids Res 34: D354-7.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Kanehisa, M.1
Goto, S.2
Hattori, M.3
Aoki-Kinoshita, K.F.4
Itoh, M.5
-
45
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
Huh WK, Falvo JV, Gerke LC, Carroll AS, Howson RW, et al. (2003) Global analysis of protein localization in budding yeast. Nature 425: 686-691.
-
(2003)
Nature
, vol.425
, pp. 686-691
-
-
Huh, W.K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
Howson, R.W.5
-
46
-
-
0036279153
-
Protein interaction verification and functional annotation by integrated analysis of genome-scale data
-
Kemmeren P, van Berkum NL, Vilo J, Bijma T, Donders R, et al. (2002) Protein interaction verification and functional annotation by integrated analysis of genome-scale data. Mol Cell 9: 1133-1143.
-
(2002)
Mol Cell
, vol.9
, pp. 1133-1143
-
-
Kemmeren, P.1
van Berkum, N.L.2
Vilo, J.3
Bijma, T.4
Donders, R.5
-
47
-
-
0033637153
-
Genomic expression programs in the response of yeast cells to environmental changes
-
Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, et al. (2000) Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Evol 11: 4241-4257.
-
(2000)
Mol Biol Evol
, vol.11
, pp. 4241-4257
-
-
Gasch, A.P.1
Spellman, P.T.2
Kao, C.M.3
Carmel-Harel, O.4
Eisen, M.B.5
-
48
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, et al. (1998) Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol Biol Evol 9: 3273-3297.
-
(1998)
Mol Biol Evol
, vol.9
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, V.R.4
Anders, K.5
-
49
-
-
0034603061
-
Signaling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles
-
Roberts CJ, Nelson B, Marton MJ, Stoughton R, Meyer MR, et al. (2000) Signaling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles. Science 287: 873-880.
-
(2000)
Science
, vol.287
, pp. 873-880
-
-
Roberts, C.J.1
Nelson, B.2
Marton, M.J.3
Stoughton, R.4
Meyer, M.R.5
-
50
-
-
0032561246
-
The transcriptional program of sporulation in budding yeast
-
Chu S, DeRisi J, Eisen M, Mulholland J, Botstein D, et al. (1998) The transcriptional program of sporulation in budding yeast. Science 282: 699-705.
-
(1998)
Science
, vol.282
, pp. 699-705
-
-
Chu, S.1
DeRisi, J.2
Eisen, M.3
Mulholland, J.4
Botstein, D.5
-
51
-
-
0034724520
-
Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ERassociated degradation
-
Travers KJ, Patil CK, Wodicka L, Lockhart DJ, Weissman JS, et al. (2000) Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ERassociated degradation. Cell 101: 249-258.
-
(2000)
Cell
, vol.101
, pp. 249-258
-
-
Travers, K.J.1
Patil, C.K.2
Wodicka, L.3
Lockhart, D.J.4
Weissman, J.S.5
-
52
-
-
0036898577
-
Microarray data normalization and transformation
-
Quackenbush J (2002) Microarray data normalization and transformation. Nat Genet 32 Suppl: 496-501.
-
(2002)
Nat Genet
, vol.32
, Issue.SUPPL.
, pp. 496-501
-
-
Quackenbush, J.1
-
53
-
-
0034786143
-
BioLayout-an automatic graph layout algorithm for similarity visualization
-
Enright AJ, Ouzounis CA (2001) BioLayout-an automatic graph layout algorithm for similarity visualization. Bioinformatics 17(9): 853-854.
-
(2001)
Bioinformatics
, vol.17
, Issue.9
, pp. 853-854
-
-
Enright, A.J.1
Ouzounis, C.A.2
|