-
1
-
-
4043181214
-
Cancer genes and the pathways they control
-
10.1038/nm1087, 15286780
-
Vogelstein B, Kinzler KW. Cancer genes and the pathways they control. Nature Medicine 2004, 10:789-799. 10.1038/nm1087, 15286780.
-
(2004)
Nature Medicine
, vol.10
, pp. 789-799
-
-
Vogelstein, B.1
Kinzler, K.W.2
-
2
-
-
36248962105
-
The Genomic Landscapes of Human Breast and Colorectal Cancers
-
10.1126/science.1145720, 17932254
-
Wood LD, Williams Parsons D, Jones S, Lin J, Sjöblom T, Leary RJ, Shen D, Boca SM, Barber T, Ptak J, Silliman N, Szabo S, Dezso Z, Ustyanksky V, Nikolskaya T, Nikolsky Y, Karchin R, Wilson PA, Kaminker JS, Zhang Z, Croshaw R, Willis J, Dawson D, Shipitsin M, Willson JKV, Sukumar S, Polyak K, Park BH, Pethiyagoda CL, Krishna Pant PV, Ballinger DG, Sparks AB, Hartigan J, Smith DR, Suh E, Papadopoulos N, Buckhaults P, Markowitz SD, Parmigiani G, Kinzler KW, Velculescu VE, Vogelstein B. The Genomic Landscapes of Human Breast and Colorectal Cancers. Science 2007, 318:1108-1113. 10.1126/science.1145720, 17932254.
-
(2007)
Science
, vol.318
, pp. 1108-1113
-
-
Wood, L.D.1
Williams Parsons, D.2
Jones, S.3
Lin, J.4
Sjöblom, T.5
Leary, R.J.6
Shen, D.7
Boca, S.M.8
Barber, T.9
Ptak, J.10
Silliman, N.11
Szabo, S.12
Dezso, Z.13
Ustyanksky, V.14
Nikolskaya, T.15
Nikolsky, Y.16
Karchin, R.17
Wilson, P.A.18
Kaminker, J.S.19
Zhang, Z.20
Croshaw, R.21
Willis, J.22
Dawson, D.23
Shipitsin, M.24
Willson, J.K.V.25
Sukumar, S.26
Polyak, K.27
Park, B.H.28
Pethiyagoda, C.L.29
Krishna Pant, P.V.30
Ballinger, D.G.31
Sparks, A.B.32
Hartigan, J.33
Smith, D.R.34
Suh, E.35
Papadopoulos, N.36
Buckhaults, P.37
Markowitz, S.D.38
Parmigiani, G.39
Kinzler, K.W.40
Velculescu, V.E.41
Vogelstein, B.42
more..
-
3
-
-
42149146048
-
Inferring transcriptional compensation interactions in yeast via stepwise structure equation modeling
-
10.1186/1471-2105-9-134, 2323972, 18312694
-
Shieh GS, Chen CM, Yu CY, Huang J, Wang WF, Lo YC. Inferring transcriptional compensation interactions in yeast via stepwise structure equation modeling. BMC Bioinformatics 2008, 9:134. 10.1186/1471-2105-9-134, 2323972, 18312694.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 134
-
-
Shieh, G.S.1
Chen, C.M.2
Yu, C.Y.3
Huang, J.4
Wang, W.F.5
Lo, Y.C.6
-
4
-
-
42649110359
-
A pattern recognition approach to infer time-lagged genetic interactions
-
10.1093/bioinformatics/btn098, 18337258
-
Chuang CL, Jen CH, Chen CM, Shieh GS. A pattern recognition approach to infer time-lagged genetic interactions. Bioinformatics 2008, 24:1183-1190. 10.1093/bioinformatics/btn098, 18337258.
-
(2008)
Bioinformatics
, vol.24
, pp. 1183-1190
-
-
Chuang, C.L.1
Jen, C.H.2
Chen, C.M.3
Shieh, G.S.4
-
5
-
-
0037687416
-
Reverse engineering gene networks - Integrating genetic perturbations with dynamical modeling
-
Tegner J, Yeung MKS, Hasty J, Collins JJ. Reverse engineering gene networks - Integrating genetic perturbations with dynamical modeling. Proceedings of the National Academy of Sciences USA 2003, 100:5944-5949.
-
(2003)
Proceedings of the National Academy of Sciences USA
, vol.100
, pp. 5944-5949
-
-
Tegner, J.1
Yeung, M.K.S.2
Hasty, J.3
Collins, J.J.4
-
6
-
-
33645307955
-
Inference of gene regulatory networks and compound mode of action from time course gene expression profiles
-
10.1093/bioinformatics/btl003, 16418235
-
Bansal M, Gatta GD, Bernardo D. Inference of gene regulatory networks and compound mode of action from time course gene expression profiles. Bioinformatics 2006, 22:815-822. 10.1093/bioinformatics/btl003, 16418235.
-
(2006)
Bioinformatics
, vol.22
, pp. 815-822
-
-
Bansal, M.1
Gatta, G.D.2
Bernardo, D.3
-
7
-
-
0345824737
-
Network component analysis: Reconstruction of regulatory signals in biological systems
-
10.1073/pnas.2136632100, 307600, 14673099
-
Liao JC, Boscolo R, Yang YL, Tran LM, Sabatti C, Roychowdhury VP. Network component analysis: Reconstruction of regulatory signals in biological systems. Proc Natl Acad Sci USA 2003, 100:15522-15527. 10.1073/pnas.2136632100, 307600, 14673099.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 15522-15527
-
-
Liao, J.C.1
Boscolo, R.2
Yang, Y.L.3
Tran, L.M.4
Sabatti, C.5
Roychowdhury, V.P.6
-
8
-
-
8844233630
-
Interactive analysis of gene interactions using graphical Gaussian model
-
Toivonen: Springer-Verlag, Mohammed J Zaki, Jason TL Wang, Hannu TT
-
Wu X, Ye Y, Sybramanian KR. Interactive analysis of gene interactions using graphical Gaussian model. Proceedings of the ACM SIGKDD Workshop on Data Mining in Bioinformatics: 26 August, 2001; San Francisco 2001, 3:63-69. Toivonen: Springer-Verlag, Mohammed J Zaki, Jason TL Wang, Hannu TT.
-
(2001)
Proceedings of the ACM SIGKDD Workshop on Data Mining in Bioinformatics: 26 August, 2001; San Francisco
, vol.3
, pp. 63-69
-
-
Wu, X.1
Ye, Y.2
Sybramanian, K.R.3
-
9
-
-
33750726845
-
A regression approach to reconstruct gene networks
-
Shieh GS, Jiang YC, Hung YC, Wang TF. A regression approach to reconstruct gene networks. Proceedings of Taipei Symposium on Statistical Genomics: 15-18 December, Taipei 2004, 357-370.
-
(2004)
Proceedings of Taipei Symposium on Statistical Genomics: 15-18 December, Taipei
, pp. 357-370
-
-
Shieh, G.S.1
Jiang, Y.C.2
Hung, Y.C.3
Wang, T.F.4
-
10
-
-
34547763812
-
A stochastic differential equation model for transcriptional regulatory networks
-
10.1186/1471-2105-8-S5-S4, 1892092, 17570863
-
Climescu-Haulica A, Quirk MD. A stochastic differential equation model for transcriptional regulatory networks. BMC Bioinformatics 2007, 8(Suppl 5):S4. 10.1186/1471-2105-8-S5-S4, 1892092, 17570863.
-
(2007)
BMC Bioinformatics
, vol.8
, Issue.SUPPL. 5
-
-
Climescu-Haulica, A.1
Quirk, M.D.2
-
11
-
-
33846703173
-
Nonlinear differential equation model for quantification of transcriptional regulation applied to microarray data of Saccharomyces cerevisiae
-
10.1093/nar/gkl1001, 1802551, 17170011
-
Vu TT, Vohradsky J. Nonlinear differential equation model for quantification of transcriptional regulation applied to microarray data of Saccharomyces cerevisiae. Nucleic Acids Res 2007, 35:279-287. 10.1093/nar/gkl1001, 1802551, 17170011.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 279-287
-
-
Vu, T.T.1
Vohradsky, J.2
-
12
-
-
20844452570
-
A stochastic differential equation model for quantifying transcriptional regulatory network in
-
Chen KC, Wang TY, Tseng HH, Huang CY, Kao CY. A stochastic differential equation model for quantifying transcriptional regulatory network in. Saccharomyces cerevisiae 2005, 21:2883-2890.
-
(2005)
Saccharomyces cerevisiae
, vol.21
, pp. 2883-2890
-
-
Chen, K.C.1
Wang, T.Y.2
Tseng, H.H.3
Huang, C.Y.4
Kao, C.Y.5
-
13
-
-
0037461033
-
Dynamic modeling of genetic net works using genetic algorithm and S-system
-
10.1093/bioinformatics/btg027, 12651723
-
Kikuchi S, Tominaga D, Arita M, Takahashi K, Tomita M. Dynamic modeling of genetic net works using genetic algorithm and S-system. Bioinformatics 2003, 19:643-650. 10.1093/bioinformatics/btg027, 12651723.
-
(2003)
Bioinformatics
, vol.19
, pp. 643-650
-
-
Kikuchi, S.1
Tominaga, D.2
Arita, M.3
Takahashi, K.4
Tomita, M.5
-
14
-
-
41949109225
-
Inference of biochemical network models in S-system using multiobjective optimization approach
-
10.1093/bioinformatics/btn075, 18321886
-
Liu PK, Wang FS. Inference of biochemical network models in S-system using multiobjective optimization approach. Bioinformatics 2008, 24:1085-1092. 10.1093/bioinformatics/btn075, 18321886.
-
(2008)
Bioinformatics
, vol.24
, pp. 1085-1092
-
-
Liu, P.K.1
Wang, F.S.2
-
15
-
-
74049116084
-
Evaluating Genetic Networks Reconstruction by Simulated Microarray Data
-
Institute of Statistical Science, Academia Sinica, Taiwan
-
Chen CM, Chang CF, Lee C, Shieh GS. Evaluating Genetic Networks Reconstruction by Simulated Microarray Data. Technical Report 04-02 2004, Institute of Statistical Science, Academia Sinica, Taiwan.
-
(2004)
Technical Report 04-02
-
-
Chen, C.M.1
Chang, C.F.2
Lee, C.3
Shieh, G.S.4
-
16
-
-
0042697343
-
The evolution of transcriptional regulation in Eukaryotes
-
10.1093/molbev/msg140, 12777501
-
Wray GA, Hahn MW, Abouheif E, Balhoff JP, Pizer M, Rockman MV, Romano LA. The evolution of transcriptional regulation in Eukaryotes. Mol Biol Evol 2003, 20:1377-1419. 10.1093/molbev/msg140, 12777501.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 1377-1419
-
-
Wray, G.A.1
Hahn, M.W.2
Abouheif, E.3
Balhoff, J.P.4
Pizer, M.5
Rockman, M.V.6
Romano, L.A.7
-
17
-
-
0035861532
-
Systematic genetic analysis with ordered arrays of Yeast deletion mutants
-
10.1126/science.1065810, 11743205
-
Tong AH, Evangelista M, Parsons AB, Xu H, Bader GD, Page N, Robinson M, Raghibizadeh S, Hogue CW, Bussey H, Andrews B, Tyers M, Boone C. Systematic genetic analysis with ordered arrays of Yeast deletion mutants. Science 2001, 294:2364-2366. 10.1126/science.1065810, 11743205.
-
(2001)
Science
, vol.294
, pp. 2364-2366
-
-
Tong, A.H.1
Evangelista, M.2
Parsons, A.B.3
Xu, H.4
Bader, G.D.5
Page, N.6
Robinson, M.7
Raghibizadeh, S.8
Hogue, C.W.9
Bussey, H.10
Andrews, B.11
Tyers, M.12
Boone, C.13
-
18
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
25624, 9843569
-
Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, Eisen MB, Brown PO, Botstein D, Futcher B. Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol Biol Cell 1998, 9:3273-3297. 25624, 9843569.
-
(1998)
Mol Biol Cell
, vol.9
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, V.R.4
Anders, K.5
Eisen, M.B.6
Brown, P.O.7
Botstein, D.8
Futcher, B.9
-
19
-
-
0036020655
-
Genetic network modeling
-
10.1517/14622416.3.4.507, 12164774
-
Van Someren EP, Wessels LF, Backer E, Reinders MJ. Genetic network modeling. Pharmacogenomics 2002, 3:507-525. 10.1517/14622416.3.4.507, 12164774.
-
(2002)
Pharmacogenomics
, vol.3
, pp. 507-525
-
-
Van Someren, E.P.1
Wessels, L.F.2
Backer, E.3
Reinders, M.J.4
-
20
-
-
0037119354
-
Regulation of two JunD isoforms by Jun N-terminal kinases
-
10.1074/jbc.M204552200, 12052834
-
Yazgan O, Pfarr CM. Regulation of two JunD isoforms by Jun N-terminal kinases. J Biol Chem 2002, 277:29710-29718. 10.1074/jbc.M204552200, 12052834.
-
(2002)
J Biol Chem
, vol.277
, pp. 29710-29718
-
-
Yazgan, O.1
Pfarr, C.M.2
-
21
-
-
3142744689
-
Modelling T-cell activation using gene expression profiling and state space models
-
10.1093/bioinformatics/bth093, 14962938
-
Rangel C, Angus J, Ghahramani Z, Lioumi M, Sotheran E, Gaiba A, Wild DL, Falciani F. Modelling T-cell activation using gene expression profiling and state space models. Bioinformatics 2004, 20:1361-1372. 10.1093/bioinformatics/bth093, 14962938.
-
(2004)
Bioinformatics
, vol.20
, pp. 1361-1372
-
-
Rangel, C.1
Angus, J.2
Ghahramani, Z.3
Lioumi, M.4
Sotheran, E.5
Gaiba, A.6
Wild, D.L.7
Falciani, F.8
-
22
-
-
0032575714
-
Death receptors: Signaling and Modulation
-
10.1126/science.281.5381.1305, 9721089
-
Ashkenazi A, Dixit VM. Death receptors: Signaling and Modulation. Science 1998, 281:1305-1308. 10.1126/science.281.5381.1305, 9721089.
-
(1998)
Science
, vol.281
, pp. 1305-1308
-
-
Ashkenazi, A.1
Dixit, V.M.2
-
23
-
-
42149176168
-
Covariance structure models for gene expression microarray data
-
Xie J, Bentler PM. Covariance structure models for gene expression microarray data. Structural Equation Modeling 2003, 10:566-582.
-
(2003)
Structural Equation Modeling
, vol.10
, pp. 566-582
-
-
Xie, J.1
Bentler, P.M.2
-
24
-
-
77949512404
-
WebPARE: Web-computing for inferring genetic or transcriptional interactions
-
10.1093/bioinformatics/btp684, 2820674, 20007742
-
Chuang CL, Wu JH, Cheng CS, Shieh GS. WebPARE: Web-computing for inferring genetic or transcriptional interactions. Bioinformatics 2010, 26:582-584. 10.1093/bioinformatics/btp684, 2820674, 20007742.
-
(2010)
Bioinformatics
, vol.26
, pp. 582-584
-
-
Chuang, C.L.1
Wu, J.H.2
Cheng, C.S.3
Shieh, G.S.4
-
25
-
-
73249153269
-
Uncovering transcriptional interactions via an adaptive fuzzy logic approach
-
10.1186/1471-2105-10-400, 2797023, 19961622
-
Chuang CL, Hung K, Chen CM, Shieh GS. Uncovering transcriptional interactions via an adaptive fuzzy logic approach. BMC Bioinformatics 2009, 10:400. 10.1186/1471-2105-10-400, 2797023, 19961622.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 400
-
-
Chuang, C.L.1
Hung, K.2
Chen, C.M.3
Shieh, G.S.4
-
28
-
-
0034609791
-
The large-scale organization of metabolic networks
-
10.1038/35036627, 11034217
-
Jeong H, Tombor B, Albert R, Oltvai ZN, Barabási AL. The large-scale organization of metabolic networks. Nature 2000, 407:651-654. 10.1038/35036627, 11034217.
-
(2000)
Nature
, vol.407
, pp. 651-654
-
-
Jeong, H.1
Tombor, B.2
Albert, R.3
Oltvai, Z.N.4
Barabási, A.L.5
-
29
-
-
0033185440
-
Evolution and coevolution of developmental programs
-
Jacob C. Evolution and coevolution of developmental programs. Computer Physics Communications 1999, 121-122:46-50.
-
(1999)
Computer Physics Communications
, vol.121-122
, pp. 46-50
-
-
Jacob, C.1
-
31
-
-
5744249209
-
Equation of State Calculations by Fast Computing Machines
-
Metropolis N, Rosenbluth A, Rosenbluth M, Teller A, Teller E. Equation of State Calculations by Fast Computing Machines. J Chem Phys 1953, 21:1087-1092.
-
(1953)
J Chem Phys
, vol.21
, pp. 1087-1092
-
-
Metropolis, N.1
Rosenbluth, A.2
Rosenbluth, M.3
Teller, A.4
Teller, E.5
-
32
-
-
77956890234
-
Monte Carlo sampling methods using Markov chains and their applications
-
Hastings WK. Monte Carlo sampling methods using Markov chains and their applications. Biometrika 1970, 57:97-109.
-
(1970)
Biometrika
, vol.57
, pp. 97-109
-
-
Hastings, W.K.1
|