-
1
-
-
84965147607
-
Cancer evolution: Mathematical models and computational inference
-
Beerenwinkel, N., Schwarz, R.F., Gerstung, M., et al. (2014). Cancer evolution: mathematical models and computational inference. Syst. Biol. 64, e1-e25.
-
(2014)
Syst. Biol.
, vol.64
, pp. e1-e25
-
-
Beerenwinkel, N.1
Schwarz, R.F.2
Gerstung, M.3
-
2
-
-
38049100456
-
Assessing the significance of chromosomal aberrations in cancer: Methodology and application to glioma
-
Beroukhim, R., Getz, G., Nghiemphu, L., et al. (2007). Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc. Natl Acad. Sci. USA 104, 20007-20012.
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 20007-20012
-
-
Beroukhim, R.1
Getz, G.2
Nghiemphu, L.3
-
3
-
-
78549262724
-
Patient-oriented gene set analysis for cancer mutation data
-
Boca, S.M., Kinzler, K.W., Velculescu, V.E., et al. (2010). Patient-oriented gene set analysis for cancer mutation data. Genome Biol. 11, R112.
-
(2010)
Genome Biol.
, vol.11
, pp. R112
-
-
Boca, S.M.1
Kinzler, K.W.2
Velculescu, V.E.3
-
4
-
-
84885074034
-
The somatic genomic landscape of glioblastoma
-
Brennan, C.W., Verhaak, R.G.W., McKenna, A., et al. (2013). The somatic genomic landscape of glioblastoma. Cell 155, 462-477.
-
(2013)
Cell
, vol.155
, pp. 462-477
-
-
Brennan, C.W.1
Verhaak, R.G.W.2
McKenna, A.3
-
5
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways
-
Cancer Genome Atlas Research Network. (2008). Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 455, 1061-1068.
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
Cancer Genome Atlas Research Network1
-
6
-
-
77949446630
-
Automated network analysis identifies core pathways in glioblastoma
-
Cerami, E., Demir, E., Schultz, N., et al. (2010). Automated network analysis identifies core pathways in glioblastoma. PLoS One 5, e8918.
-
(2010)
PLoS One
, vol.5
-
-
Cerami, E.1
Demir, E.2
Schultz, N.3
-
7
-
-
84856535081
-
Mutual exclusivity analysis identifies oncogenic network modules
-
Ciriello, G., Cerami, E.G., Sander, C., et al. (2011). Mutual exclusivity analysis identifies oncogenic network modules. Genome Res. 22, 398-406.
-
(2011)
Genome Res.
, vol.22
, pp. 398-406
-
-
Ciriello, G.1
Cerami, E.G.2
Sander, C.3
-
8
-
-
18444374405
-
Mutations of the BRAF gene in human cancer
-
Davies, H., Bignell, G.R., Cox, C., et al. (2002). Mutations of the BRAF gene in human cancer. Nature 417, 949-954.
-
(2002)
Nature
, vol.417
, pp. 949-954
-
-
Davies, H.1
Bignell, G.R.2
Cox, C.3
-
9
-
-
24344496951
-
An approximation to the distribution of finite sample size mutual information estimates
-
Goebel, B., Dawy, Z., Hagenauer, J., et al. (2005). An approximation to the distribution of finite sample size mutual information estimates. IEEE Int. Conf. Commun. 2, 1102-1106.
-
(2005)
IEEE Int. Conf. Commun.
, vol.2
, pp. 1102-1106
-
-
Goebel, B.1
Dawy, Z.2
Hagenauer, J.3
-
10
-
-
79952284127
-
Review Hallmarks of cancer: The next generation
-
Hanahan, D., and Weinberg, R.A. (2011). Review Hallmarks of cancer: the next generation. Cell 144, 646-674.
-
(2011)
Cell
, vol.144
, pp. 646-674
-
-
Hanahan, D.1
Weinberg, R.A.2
-
11
-
-
84887084951
-
Network-based stratification of tumor mutations
-
Hofree, M., Shen, J.P., Carter, H., et al. (2013). Network-based stratification of tumor mutations. Nat. Methods 10, 1108-1115. doi:10.1038/nmeth.2651.
-
(2013)
Nat. Methods
, vol.10
, pp. 1108-1115
-
-
Hofree, M.1
Shen, J.P.2
Carter, H.3
-
12
-
-
18344381018
-
Cyclin E in normal and neoplastic cell cycles
-
Hwang, H.C., and Clurman, B.E. (2005). Cyclin E in normal and neoplastic cell cycles. Oncogene 24, 2776-2786.
-
(2005)
Oncogene
, vol.24
, pp. 2776-2786
-
-
Hwang, H.C.1
Clurman, B.E.2
-
13
-
-
0004257990
-
-
New York: Dover Publications, Inc.
-
nd edn). New York: Dover Publications, Inc.
-
(1968)
nd Edn)
-
-
Kullback, S.1
-
14
-
-
84880507665
-
Mutational heterogeneity in cancer and the search for new cancer-associated genes
-
Lawrence, M.S., Stojanov, P., Polak, P., et al. (2013). Mutational heterogeneity in cancer and the search for new cancer-associated genes. Nature 499, 214-218.
-
(2013)
Nature
, vol.499
, pp. 214-218
-
-
Lawrence, M.S.1
Stojanov, P.2
Polak, P.3
-
15
-
-
84878498657
-
Simultaneous identification of multiple driver pathways in cancer
-
Leiserson, M.D.M., Blokh, D., Sharan, R., et al. (2013). Simultaneous identification of multiple driver pathways in cancer. PLoS Comput. Biol. 9, e1003054.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Leiserson, M.D.M.1
Blokh, D.2
Sharan, R.3
-
16
-
-
84866716158
-
APC/C(Cdh1) targets brain-specific kinase 2 (BRSK2) for degradation via the ubiquitin-proteasome pathway
-
Li, R., Wan, B., Zhou, J., et al. (2012). APC/C(Cdh1) targets brain-specific kinase 2 (BRSK2) for degradation via the ubiquitin-proteasome pathway. PLoS One 7, e45932.
-
(2012)
PLoS One
, vol.7
-
-
Li, R.1
Wan, B.2
Zhou, J.3
-
17
-
-
79954546729
-
Detecting and analyzing differentially activated pathways in brainregions of Alzheimer's disease patients
-
Liu, Z.-P., Wang, Y., Zhang, X.-S., et al. (2011). Detecting and analyzing differentially activated pathways in brainregions of Alzheimer's disease patients. Mol. Biosyst. 7, 1441-1452.
-
(2011)
Mol. Biosyst.
, vol.7
, pp. 1441-1452
-
-
Liu, Z.-P.1
Wang, Y.2
Zhang, X.-S.3
-
18
-
-
79955166265
-
GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers
-
Mermel, C.H., Schumacher, S.E., Hill, B., et al. (2011). GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers. Genome Biol. 12, R41.
-
(2011)
Genome Biol.
, vol.12
, pp. R41
-
-
Mermel, C.H.1
Schumacher, S.E.2
Hill, B.3
-
19
-
-
59049090831
-
AlphaII-spectrin is critical for cell adhesion and cell cycle
-
Metral, S., Machnicka, B., Bigot, S., et al. (2009). AlphaII-spectrin is critical for cell adhesion and cell cycle. J. Biol. Chem. 284, 2409-2418.
-
(2009)
J. Biol. Chem.
, vol.284
, pp. 2409-2418
-
-
Metral, S.1
Machnicka, B.2
Bigot, S.3
-
20
-
-
23244447037
-
BRAFE600-associated senescence-like cell cycle arrest of human naevi
-
Michaloglou, C., Vredeveld, L.C.W., Soengas, M.S., et al. (2005). BRAFE600-associated senescence-like cell cycle arrest of human naevi. Nature 436, 720-724.
-
(2005)
Nature
, vol.436
, pp. 720-724
-
-
Michaloglou, C.1
Vredeveld, L.C.W.2
Soengas, M.S.3
-
21
-
-
79953902594
-
Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors
-
Miller, C.A., Settle, S.H., Sulman, E.P., et al. (2011). Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors. BMC Med. Genomics 4, 34.
-
(2011)
BMC Med. Genomics
, vol.4
, pp. 34
-
-
Miller, C.A.1
Settle, S.H.2
Sulman, E.P.3
-
22
-
-
84875016233
-
Pattern discovery and cancer gene identification in integrated cancer genomic data
-
Mo, Q., Wang, S., Seshan, V.E., et al. (2013). Pattern discovery and cancer gene identification in integrated cancer genomic data. Proc. Natl Acad. Sci. USA 110, 4245-4250.
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 4245-4250
-
-
Mo, Q.1
Wang, S.2
Seshan, V.E.3
-
23
-
-
77952108366
-
Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma
-
Noushmehr, H., Weisenberger, D.J., Diefes, K., et al. (2010). Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. Cancer Cell 17, 510-522.
-
(2010)
Cancer Cell
, vol.17
, pp. 510-522
-
-
Noushmehr, H.1
Weisenberger, D.J.2
Diefes, K.3
-
24
-
-
84907720552
-
Inferring tree causal models of cancer progression with probability raising
-
Olde Loohuis, L., Caravagna, G., Graudenzi, A., et al. (2014). Inferring tree causal models of cancer progression with probability raising. PLoS One 9, e108358.
-
(2014)
PLoS One
, vol.9
-
-
Olde Loohuis, L.1
Caravagna, G.2
Graudenzi, A.3
-
25
-
-
80053633503
-
A nucleolar protein, H19 opposite tumor suppressor (HOTS), is atumor growth inhibitor encoded by a human imprinted H19 antisense transcript
-
Onyango, P., and Feinberg, A.P. (2011). A nucleolar protein, H19 opposite tumor suppressor (HOTS), is atumor growth inhibitor encoded by a human imprinted H19 antisense transcript. Proc. Natl Acad. Sci. USA 108, 16759-16764.
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 16759-16764
-
-
Onyango, P.1
Feinberg, A.P.2
-
26
-
-
0034625042
-
Gain of imprinting at chromosome 11p15, A pathogenetic mechanism identified in human hepatocarcinomas
-
Schwienbacher, C., Gramantieri, L., Scelfo, R., et al. (2000). Gain of imprinting at chromosome 11p15, A pathogenetic mechanism identified in human hepatocarcinomas. Proc. Natl Acad. Sci. USA 97, 5445-5449.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 5445-5449
-
-
Schwienbacher, C.1
Gramantieri, L.2
Scelfo, R.3
-
28
-
-
84897386130
-
Modeling mutual exclusivity of cancer mutations
-
Szczurek, E., and Beerenwinkel, N. (2014). Modeling mutual exclusivity of cancer mutations. PLoS Comput. Biol. 10, e1003503.
-
(2014)
PLoS Comput. Biol.
, vol.10
-
-
Szczurek, E.1
Beerenwinkel, N.2
-
29
-
-
58049215467
-
A novel signaling pathway impact analysis
-
Tarca, A.L., Draghici, S., Khatri, P., et al. (2009). A novel signaling pathway impact analysis. Bioinformatics 25, 75-82.
-
(2009)
Bioinformatics
, vol.25
, pp. 75-82
-
-
Tarca, A.L.1
Draghici, S.2
Khatri, P.3
-
30
-
-
79952389826
-
Algorithms for detecting significantly mutated pathways in cancer
-
Vandin, F., Upfal, E., and Raphael, B.J. (2011). Algorithms for detecting significantly mutated pathways in cancer. J. Comput. Biol. 18, 507-522.
-
(2011)
J. Comput. Biol.
, vol.18
, pp. 507-522
-
-
Vandin, F.1
Upfal, E.2
Raphael, B.J.3
-
31
-
-
84856532705
-
De novo discovery of mutated driver pathways in cancer
-
Vandin, F., Upfal, E., and Raphael, B.J. (2012). De novo discovery of mutated driver pathways in cancer. Genome Res. 22, 375-385.
-
(2012)
Genome Res.
, vol.22
, pp. 375-385
-
-
Vandin, F.1
Upfal, E.2
Raphael, B.J.3
-
32
-
-
33745628785
-
Inference of disease-related molecular logic from systems-based microarray analysis
-
Varadan, V., and Anastassiou, D. (2006). Inference of disease-related molecular logic from systems-based microarray analysis. PLoS Comput. Biol. 2, e68.
-
(2006)
PLoS Comput. Biol.
, vol.2
, pp. e68
-
-
Varadan, V.1
Anastassiou, D.2
-
33
-
-
77954195272
-
Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM
-
Vaske, C.J., Benz, S.C., Sanborn, J.Z., et al. (2010). Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM. Bioinformatics 26, i237-i245.
-
(2010)
Bioinformatics
, vol.26
, pp. i237-i245
-
-
Vaske, C.J.1
Benz, S.C.2
Sanborn, J.Z.3
-
34
-
-
73649123907
-
Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1
-
Verhaak, R.G.W., Hoadley, K.A., Purdom, E., et al. (2010). Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell 17, 98-110.
-
(2010)
Cancer Cell
, vol.17
, pp. 98-110
-
-
Verhaak, R.G.W.1
Hoadley, K.A.2
Purdom, E.3
-
35
-
-
84863826750
-
BRSK2 is regulated by ER stress in protein level and involved in ER stress-induced apoptosis
-
Wang, Y., Wan, B., Li, D., et al. (2012). BRSK2 is regulated by ER stress in protein level and involved in ER stress-induced apoptosis. Biochem. Biophys. Res. Commun. 423, 813-818.
-
(2012)
Biochem. Biophys. Res. Commun.
, vol.423
, pp. 813-818
-
-
Wang, Y.1
Wan, B.2
Li, D.3
-
36
-
-
84991237207
-
Tumor evolutionary directed graphs and the history of chronic lymphocytic leukemia
-
Wang, J., Khiabanian, H., Rossi, D., et al. (2014). Tumor evolutionary directed graphs and the history of chronic lymphocytic leukemia. ELife 3, e02869.
-
(2014)
ELife
, vol.3
-
-
Wang, J.1
Khiabanian, H.2
Rossi, D.3
-
37
-
-
77952310528
-
A human functional protein interaction network and its application to cancer data analysis
-
Wu, G., Feng, X., and Stein, L. (2010). A human functional protein interaction network and its application to cancer data analysis. Genome Biol. 11, R53.
-
(2010)
Genome Biol.
, vol.11
, pp. R53
-
-
Wu, G.1
Feng, X.2
Stein, L.3
-
38
-
-
62449252775
-
Oncogenic EGFR signaling cooperates with loss of tumor suppressor gene functions in gliomagenesis
-
Zhu, H., Acquaviva, J., Ramachandran, P., et al. (2009). Oncogenic EGFR signaling cooperates with loss of tumor suppressor gene functions in gliomagenesis. Proc. Natl Acad. Sci. USA 106, 2712-2716.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 2712-2716
-
-
Zhu, H.1
Acquaviva, J.2
Ramachandran, P.3
|