-
1
-
-
75549087047
-
The IntAct molecular interaction database in 2010
-
Aranda, B., Achuthan, P., Alam-Faruque, Y., et al. 2010. The IntAct molecular interaction database in 2010. Nucleic Acids Res. 38 (Suppl. 1) D525-D531.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.SUPPL. 1
-
-
Aranda, B.1
Achuthan, P.2
Alam-Faruque, Y.3
-
2
-
-
33748702052
-
Prognostic significance of gene expression profiles of metastatic neuroblastomas lacking MYCN gene amplification
-
Asgharzadeh, S., Pique-Regi, R., Sposto, R., et al. 2006. Prognostic significance of gene expression profiles of metastatic neuroblastomas lacking MYCN gene amplification. J. Natl. Cancer Inst. 98, 1193-1203.
-
(2006)
J. Natl. Cancer Inst
, vol.98
, pp. 1193-1203
-
-
Asgharzadeh, S.1
Pique-Regi, R.2
Sposto, R.3
-
3
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
Ashburner, M., Ball, C. A., Blake, J.A., et al. 2000. Gene ontology: tool for the unification of biology. Nat. Genet. 25, 25-29.
-
(2000)
Nat. Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
-
5
-
-
31144459985
-
Oncogenic pathway signatures in human cancers as a guide to targeted therapies
-
Bild, A.H., Yao, G., Chang, J.T., et al. 2006. Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Nature 439, 353-357.
-
(2006)
Nature
, vol.439
, pp. 353-357
-
-
Bild, A.H.1
Yao, G.2
Chang, J.T.3
-
6
-
-
39049164230
-
Spanning forests and the golden ratio
-
Chebotarev. P. 2008. Spanning forests and the golden ratio. Discr. Appl. Math. 156, 813-821.
-
(2008)
Discr. Appl. Math
, vol.156
, pp. 813-821
-
-
Chebotarev, P.1
-
8
-
-
33845191779
-
Genomic and transcriptional aberrations linked to breast cancer pathophysiologies
-
Chin, K., DeVries, S., Fridlyand, J., et al. 2006. Genomic and transcriptional aberrations linked to breast cancer pathophysiologies. Cancer Cell 10, 529-541.
-
(2006)
Cancer Cell
, vol.10
, pp. 529-541
-
-
Chin, K.1
Devries, S.2
Fridlyand, J.3
-
9
-
-
33745619564
-
Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions
-
Nian Chua, H., Sung, W.K., and Wong, L. 2006. Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions. Bioinformatics 22, 1623-1630.
-
(2006)
Bioinformatics
, vol.22
, pp. 1623-1630
-
-
Nian Chua, H.1
Sung, W.K.2
Wong, L.3
-
10
-
-
35348891430
-
Network-based classification of breast cancer metastasis
-
Chuang, H.-Y.Y., Lee, E., Liu, Y.-T.T., et al. 2007. Network-based classification of breast cancer metastasis. Mol. Syst. Biol. 3.
-
(2007)
Mol. Syst. Biol
, vol.3
-
-
Chuang, H.-Y.Y.1
Lee, E.2
Liu, Y.-T.T.3
-
11
-
-
34249753618
-
Support-vector networks
-
Cortes C., and Vapnik, V.1995. Support-vector networks. Mach. Learn. 20, 273-297.
-
(1995)
Mach. Learn
, vol.20
, pp. 273-297
-
-
Cortes, C.1
Vapnik, V.2
-
12
-
-
0004167131
-
-
3rd ed. Vch Verlagsgesellschaft Mbh. Berlin
-
Cvetkovic, D.M., Doob, M., Sachs, H., et al. 1998. Spectra of Graphs: Theory and Applications, 3rd ed. Vch Verlagsgesellschaft Mbh. Berlin.
-
(1998)
Spectra of Graphs: Theory and Applications
-
-
Cvetkovic, D.M.1
Doob, M.2
Sachs, H.3
-
13
-
-
13444282534
-
Outcome signature genes in breast cancer: Is there a unique set?
-
Ein-Dor, L., Kela, I., Getz, G., et al. 2005. Outcome signature genes in breast cancer: is there a unique set? Bioinformatics 21, 171-178.
-
(2005)
Bioinformatics
, vol.21
, pp. 171-178
-
-
Ein-Dor, L.1
Kela, I.2
Getz, G.3
-
14
-
-
0019635432
-
Graph potentials method and its application for chemical information processing
-
Golender, V.E., Drboglav, V.V., and Rosenblit, A.B. 1981. Graph potentials method and its application for chemical information processing. J. Chem. Information Comput. Sci. 21, 196-204.
-
(1981)
J. Chem. Information Comput. Sci
, vol.21
, pp. 196-204
-
-
Golender, V.E.1
Drboglav, V.V.2
Rosenblit, A.B.3
-
16
-
-
0036161259
-
Gene selection for cancer classification using support vector machines
-
Guyon, I., Weston, J., Barnhill, S., et al. 2002. Gene selection for cancer classification using support vector machines. Mach. Learn. 46, 389-422.
-
(2002)
Mach. Learn
, vol.46
, pp. 389-422
-
-
Guyon, I.1
Weston, J.2
Barnhill, S.3
-
17
-
-
34548863946
-
Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors
-
Herschkowitz, J., Simin, K., Weigman, V., et al. 2007. Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors. Genome Biol. 8, R76.
-
(2007)
Genome Biol
, vol.8
-
-
Herschkowitz, J.1
Simin, K.2
Weigman, V.3
-
18
-
-
84942484786
-
Ridge regression: Biased estimation for nonorthogonal problems
-
Hoerl A.E., and Kennard, R.W. 1970. Ridge regression: biased estimation for nonorthogonal problems. Technometrics 12, 55-67.
-
(1970)
Technometrics
, vol.12
, pp. 55-67
-
-
Hoerl, A.E.1
Kennard, R.W.2
-
19
-
-
67049160152
-
Learning on weighted hypergraphs to integrate protein interactions and gene expressions for cancer outcome prediction
-
Hwang, T., Tian, Z., Kuang, R., et al. 2008. Learning on weighted hypergraphs to integrate protein interactions and gene expressions for cancer outcome prediction. Proc 8th IEEE Int. Conf. Data Mining (ICDM '08) 293-302.
-
(2008)
Proc 8th IEEE Int. Conf. Data Mining (ICDM '08)
, pp. 293-302
-
-
Hwang, T.1
Tian, Z.2
Kuang, R.3
-
20
-
-
33751261643
-
Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer
-
Ivshina, A.V., George, J., Senko, O., et al. 2006. Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer. Cancer Res. 66, 10292-10301.
-
(2006)
Cancer Res
, vol.66
, pp. 10292-10301
-
-
Ivshina, A.V.1
George, J.2
Senko, O.3
-
21
-
-
0036141992
-
Relating whole-genome expression data with protein-protein interactions
-
Jansen, R., Greenbaum, D., and Gerstein, M. 2002. Relating whole-genome expression data with protein-protein interactions. Genome Res. 12, 37-46.
-
(2002)
Genome Res
, vol.12
, pp. 37-46
-
-
Jansen, R.1
Greenbaum, D.2
Gerstein, M.3
-
22
-
-
58149193234
-
String 8 - A global view on proteins and their functional interactions in 630 organisms
-
Jensen, L.J., Kuhn, M., Stark, M., et al. 2009. String 8-a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 37, 412-416.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 412-416
-
-
Jensen, L.J.1
Kuhn, M.2
Stark, M.3
-
23
-
-
0033982936
-
KEGG: Kyoto encyclopedia of genes and genomes
-
Kanehisa M., and Goto, S. 2000. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28, 27-30.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
24
-
-
33846047770
-
IntAct-open source resource for molecular interaction data
-
Kerrien, S., Alam-Faruque, Y., Aranda, B., et al. 2007. IntAct-open source resource for molecular interaction data. Nucleic Acids Res. 35, 561-565.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 561-565
-
-
Kerrien, S.1
Alam-Faruque, Y.2
Aranda, B.3
-
25
-
-
85164392958
-
A study of cross-validation and bootstrap for accuracy estimation and model selection
-
Kohavi, R. 1995.A study of cross-validation and bootstrap for accuracy estimation and model selection. IJCAI 1137-1143.
-
(1995)
IJCAI
, pp. 1137-1143
-
-
Kohavi, R.1
-
26
-
-
34047095926
-
Expression profiling defines a recurrence signature in lung squamous cell carcinoma
-
Larsen, J.E., Pavey, S.J., Passmore, L.H., et al. 2007. Expression profiling defines a recurrence signature in lung squamous cell carcinoma. Carcinogenesis 28, 760-766.
-
(2007)
Carcinogenesis
, vol.28
, pp. 760-766
-
-
Larsen, J.E.1
Pavey, S.J.2
Passmore, L.H.3
-
27
-
-
58149343905
-
Prediction of recurrence-free survival in postoperative non small cell lung cancer patients by using an integrated model of clinical information and gene expression
-
Lee, E.S., Son, D.S., Kim, S.H., et al. 2008a. Prediction of recurrence-free survival in postoperative non small cell lung cancer patients by using an integrated model of clinical information and gene expression. Clin. Cancer Res. 14, 7397-7404.
-
(2008)
Clin. Cancer Res
, vol.14
, pp. 7397-7404
-
-
Lee, E.S.1
Son, D.S.2
Kim, S.H.3
-
28
-
-
57149092133
-
Inferring pathway activity toward precise disease classification
-
Lee, E., Chuang, H.Y., Kim, J.W., et al. 2008b. Inferring pathway activity toward precise disease classification. PLoS Comput. Biol. 4, e1000217.
-
(2008)
PLoS Comput. Biol
, vol.4
-
-
Lee, E.1
Chuang, H.Y.2
Kim, J.W.3
-
30
-
-
0040946858
-
Doubly stochastic graph matrices II
-
Merris, R. 1998. Doubly stochastic graph matrices. II. Linear Multilinear Algebra 45, 275-285.
-
(1998)
Linear Multilinear Algebra
, vol.45
, pp. 275-285
-
-
Merris, R.1
-
31
-
-
65849165004
-
Network analysis of differential expression for the identification of disease-causing genes
-
Nitsch, D., Tranchevent, L.C., Thienpont, B., et al. 2009. Network analysis of differential expression for the identification of disease-causing genes. PLoS ONE 4, e5526.
-
(2009)
PLoS ONE
, vol.4
-
-
Nitsch, D.1
Tranchevent, L.C.2
Thienpont, B.3
-
32
-
-
33744814477
-
Gene expression and benefit of chemotherapy in women with node-negative, estrogen receptor-positive breast cancer
-
Paik, S., Tang, G., Shak, S., et al. 2006. Gene expression and benefit of chemotherapy in women with node-negative, estrogen receptor-positive breast cancer. J. Clin. Oncol. 24, 3726-3734.
-
(2006)
J. Clin. Oncol
, vol.24
, pp. 3726-3734
-
-
Paik, S.1
Tang, G.2
Shak, S.3
-
33
-
-
34447632167
-
Gene expression profiling spares early breast cancer patients from adjuvant therapy: Derived and validated in two population-based cohorts
-
Pawitan, Y., Bjohle, J., Amler, L., et al. 2005. Gene expression profiling spares early breast cancer patients from adjuvant therapy: derived and validated in two population-based cohorts. Breast Cancer Res. 7, R953-R964.
-
(2005)
Breast Cancer Res
, vol.7
-
-
Pawitan, Y.1
Bjohle, J.2
Amler, L.3
-
34
-
-
33644820339
-
Molecular subclasses of high-grade glioma predict prognosis, delineate a pattern of disease progression, and resemble stages in neurogenesis
-
Phillips, H.S., Kharbanda, S., Chen, R., et al. 2006. Molecular subclasses of high-grade glioma predict prognosis, delineate a pattern of disease progression, and resemble stages in neurogenesis. Cancer Cell 9, 157-173.
-
(2006)
Cancer Cell
, vol.9
, pp. 157-173
-
-
Phillips, H.S.1
Kharbanda, S.2
Chen, R.3
-
35
-
-
33847162049
-
Classification of microarray data using gene networks
-
Rapaport, F., Zinovyev, A., Dutreix, M., et al. 2007. Classification of microarray data using gene networks. BMC Bioinform. 8, 35.
-
(2007)
BMC Bioinform
, vol.8
, pp. 35
-
-
Rapaport, F.1
Zinovyev, A.2
Dutreix, M.3
-
36
-
-
33747878451
-
Gene expression signatures for predicting prognosis of squamous cell and adenocarcinomas of the lung
-
Raponi, M., Zhang, Y., Yu, J., et al. 2006. Gene expression signatures for predicting prognosis of squamous cell and adenocarcinomas of the lung. Cancer Res. 66, 7466-7472.
-
(2006)
Cancer Res
, vol.66
, pp. 7466-7472
-
-
Raponi, M.1
Zhang, Y.2
Yu, J.3
-
37
-
-
27144530248
-
Towards a proteome-scale map of the human protein-protein interaction network
-
Rual, J.F., Venkatesan, K., Hao, T., et al. 2005. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437, 1173-1178.
-
(2005)
Nature
, vol.437
, pp. 1173-1178
-
-
Rual, J.F.1
Venkatesan, K.2
Hao, T.3
-
38
-
-
0034666108
-
String: A web-server to retrieve and display the repeatedly occurring neighbourhood of a gene
-
Snel, B., Lehmann, G., Bork, P., et al. 2000. String: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene. Nucleic Acids Res. 28, 3442-3444.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 3442-3444
-
-
Snel, B.1
Lehmann, G.2
Bork, P.3
-
39
-
-
0037478605
-
Repeated observation of breast tumor subtypes in independent gene expression data sets
-
Sørlie, T., Tibshirani, R., Parker, J., et al. 2003. Repeated observation of breast tumor subtypes in independent gene expression data sets. Proc. Nat. Acad. Sci USA 100, 8418-8423.
-
(2003)
Proc. Nat. Acad. Sci USA
, vol.100
, pp. 8418-8423
-
-
Sørlie, T.1
Tibshirani, R.2
Parker, J.3
-
40
-
-
26444608611
-
Discovering statistically significant pathways in expression profiling studies
-
Tian, L., Greenberg, S.A., Kong, S.W., et al. 2005. Discovering statistically significant pathways in expression profiling studies. Proc. Nat. Acad. Sci USA 102, 13544-13549.
-
(2005)
Proc. Nat. Acad. Sci USA
, vol.102
, pp. 13544-13549
-
-
Tian, L.1
Greenberg, S.A.2
Kong, S.W.3
-
41
-
-
70350688145
-
A hypergraph-based learning algorithm for classifying gene expression and arraycgh data with prior knowledge
-
Tian, Z., Hwang, T., and Kuang, R. 2009. A hypergraph-based learning algorithm for classifying gene expression and arraycgh data with prior knowledge. Bioinformatics 25, 2831-2838.
-
(2009)
Bioinformatics
, vol.25
, pp. 2831-2838
-
-
Tian, Z.1
Hwang, T.2
Kuang, R.3
-
42
-
-
0037137519
-
A gene-expression signature as a predictor of survival in breast cancer
-
Van de Vijver, M.J., He, Y.D., van 't Veer, L.J., et al. 2002. A gene-expression signature as a predictor of survival in breast cancer. N. Engl. J. Med. 347, 1999-2009.
-
(2002)
N. Engl. J. Med
, vol.347
, pp. 1999-2009
-
-
Van De Vijver, M.J.1
He, Y.D.2
Van 'T Veer, L.J.3
-
43
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
Van 't Veer, L.J., Dai, H., van de Vijver, M.J., et al. 2002 Gene expression profiling predicts clinical outcome of breast cancer. Nature. 415. 530-536.
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van 'T Veer, L.J.1
Dai, H.2
Van De Vijver, M.J.3
-
44
-
-
0003450542
-
-
(Information Science and Statistics), 2nd ed. Springer, New York
-
Vapnik, V. 1999. The Nature of Statistical Learning Theory (Information Science and Statistics), 2nd ed. Springer, New York.
-
(1999)
The Nature of Statistical Learning Theory
-
-
Vapnik, V.1
-
45
-
-
13844310310
-
Gene-expression profiles to predict distant metastasis of lymph-nodenegative primary breast cancer
-
Wang, Y., Klijn, J.G., Zhang, Y. et al. 2005. Gene-expression profiles to predict distant metastasis of lymph-nodenegative primary breast cancer. Lancet 365, 671-679.
-
(2005)
Lancet
, vol.365
, pp. 671-679
-
-
Wang, Y.1
Klijn, J.G.2
Zhang, Y.3
-
46
-
-
38849163722
-
Incorporating gene networks into statistical tests for genomic data via a spatially correlated mixture model
-
Wei, P., and Pan, W. 2008. Incorporating gene networks into statistical tests for genomic data via a spatially correlated mixture model. Bioinformatics 24, 404-411.
-
(2008)
Bioinformatics
, vol.24
, pp. 404-411
-
-
Wei, P.1
Pan, W.2
-
47
-
-
34547844074
-
A Markov random field model for network-based analysis of genomic data
-
Wei Z., and Li, H. 2007. A Markov random field model for network-based analysis of genomic data. Bioinformatics 23, 1537-1544.
-
(2007)
Bioinformatics
, vol.23
, pp. 1537-1544
-
-
Wei, Z.1
Li, H.2
-
48
-
-
84864027458
-
Learning with hypergraphs: Clustering, classification, and embedding
-
Zhou, D., Huang, J., and Schölkopf, B. 2006. Learning with hypergraphs: clustering, classification, and embedding. Adv. NIPS 19, 1601-1608.
-
(2006)
Adv. NIPS
, vol.19
, pp. 1601-1608
-
-
Zhou, D.1
Huang, J.2
Schölkopf, B.3
-
49
-
-
60849121073
-
Network-based support vector machine for classification of microarray samples
-
Zhu, Y., Shen, X., and Pan, W. 2009. Network-based support vector machine for classification of microarray samples. BMC Bioinform. 10, S21.
-
(2009)
BMC Bioinform
, vol.10
-
-
Zhu, Y.1
Shen, X.2
Pan, W.3
|