-
1
-
-
16844376909
-
Reverse engineering of regulatory networks in human B cells
-
Basso K, Margolin AA, Stolovitzky G, et al. Reverse engineering of regulatory networks in human B cells. Nat Genet 2005;37:382-90.
-
(2005)
Nat Genet
, vol.37
, pp. 382-390
-
-
Basso, K.1
Margolin, A.A.2
Stolovitzky, G.3
-
2
-
-
70249108504
-
Genome-wide identification of posttranslational modulators of transcription factor activity in human B cells
-
Wang K, Saito M, Bisikirska BC, et al. Genome-wide identification of posttranslational modulators of transcription factor activity in human B cells. Nat Biotechnol 2009;27:829-39.
-
(2009)
Nat Biotechnol
, vol.27
, pp. 829-839
-
-
Wang, K.1
Saito, M.2
Bisikirska, B.C.3
-
3
-
-
75149195336
-
The transcriptional network for mesenchymal transformation of brain tumours
-
Carro MS, Lim WK, Alvarez MJ, et al. The transcriptional network for mesenchymal transformation of brain tumours. Nature 2010;463:318-25.
-
(2010)
Nature
, vol.463
, pp. 318-325
-
-
Carro, M.S.1
Lim, W.K.2
Alvarez, M.J.3
-
4
-
-
68349116164
-
The N-Myc-DLL3 cascade is suppressed by the ubiquitin ligase Huwe1 to inhibit proliferation and promote neurogenesis in the developing brain
-
Zhao X, D' Arca D, Lim WK, et al. The N-Myc-DLL3 cascade is suppressed by the ubiquitin ligase Huwe1 to inhibit proliferation and promote neurogenesis in the developing brain. Dev Cell 2009;17:210-21.
-
(2009)
Dev Cell
, vol.17
, pp. 210-221
-
-
Zhao, X.1
D' Arca, D.2
Lim, W.K.3
-
5
-
-
78649976005
-
An integrated approach to uncover drivers of cancer
-
Akavia UD, Litvin O, Kim J, et al. An integrated approach to uncover drivers of cancer. Cell 2010;143:1005-17.
-
(2010)
Cell
, vol.143
, pp. 1005-1017
-
-
Akavia, U.D.1
Litvin, O.2
Kim, J.3
-
6
-
-
70350686719
-
The role of DNA shape in protein-DNA recognition
-
Rohs R, West SM, Sosinsky A, et al. The role of DNA shape in protein-DNA recognition. Nature 2009;461:1248-53.
-
(2009)
Nature
, vol.461
, pp. 1248-1253
-
-
Rohs, R.1
West, S.M.2
Sosinsky, A.3
-
7
-
-
77954519381
-
geWorkbench: an open source platform for integrative genomics
-
Floratos A, Smith K, Ji Z, et al. geWorkbench: an open source platform for integrative genomics. Bioinformatics 2010;26:1779-80.
-
(2010)
Bioinformatics
, vol.26
, pp. 1779-1780
-
-
Floratos, A.1
Smith, K.2
Ji, Z.3
-
8
-
-
38049129809
-
A context-specific network of protein-DNA and protein-protein interactions reveals new regulatory motifs in human B cells. RECOMB Satellite Workshop on Systems Biology, San Diego, CA, December 2006
-
Lefebvre C, Lim WK, Basso K, et al. A context-specific network of protein-DNA and protein-protein interactions reveals new regulatory motifs in human B cells. RECOMB Satellite Workshop on Systems Biology, San Diego, CA, December 2006. Lect Notes Comput Sci 2007;4532:42-56.
-
(2007)
Lect Notes Comput Sci
, vol.4532
, pp. 42-56
-
-
Lefebvre, C.1
Lim, W.K.2
Basso, K.3
-
9
-
-
77953255983
-
A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers
-
Lefebvre C, Rajbhandari P, Alvarez MJ, et al. A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Mol Syst Biol 2010;6:377.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 377
-
-
Lefebvre, C.1
Rajbhandari, P.2
Alvarez, M.J.3
-
10
-
-
39149143293
-
A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas
-
Mani KM, Lefebvre C, Wang K, et al. A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas. Mol Syst Biol 2008;4:169.
-
(2008)
Mol Syst Biol
, vol.4
, pp. 169
-
-
Mani, K.M.1
Lefebvre, C.2
Wang, K.3
-
11
-
-
33947305781
-
ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context
-
Margolin AA, Nemenman I, Basso K, et al. ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC bioinformatics 2006;7(Suppl 1):S7.
-
(2006)
BMC bioinformatics
, vol.7
, Issue.SUPPL. 1
-
-
Margolin, A.A.1
Nemenman, I.2
Basso, K.3
-
12
-
-
33750353888
-
Reverse engineering cellular networks
-
Margolin AA, Wang K, Lim WK, et al. Reverse engineering cellular networks. Nat Protoc 2006;1:662-71.
-
(2006)
Nat Protoc
, vol.1
, pp. 662-671
-
-
Margolin, A.A.1
Wang, K.2
Lim, W.K.3
-
13
-
-
33845306813
-
NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth
-
Palomero T, Lim WK, Odom DT, et al. NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth. Proc Natl Acad Sci U S A 2006;103:18261-6.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 18261-18266
-
-
Palomero, T.1
Lim, W.K.2
Odom, D.T.3
-
14
-
-
33745800831
-
Genome-wide discovery of modulators of transcriptional interactions in human B lymphocytes. RECOMB 2006
-
Wang K, Banerjee N, Margolin AA, et al. Genome-wide discovery of modulators of transcriptional interactions in human B lymphocytes. RECOMB 2006. Lect Notes Comput Sci 2006;3909:348-62.
-
(2006)
Lect Notes Comput Sci
, vol.3909
, pp. 348-362
-
-
Wang, K.1
Banerjee, N.2
Margolin, A.A.3
-
15
-
-
12144290446
-
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data
-
Rzhetsky A, Iossifov I, Koike T, et al. GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J Biomed Inform 2004;37:43-53.
-
(2004)
J Biomed Inform
, vol.37
, pp. 43-53
-
-
Rzhetsky, A.1
Iossifov, I.2
Koike, T.3
-
16
-
-
61949455384
-
Dissecting the interface between signaling and transcriptional regulation in human B cells
-
Wang K, Alvarez MJ, Bisikirska BC, et al. Dissecting the interface between signaling and transcriptional regulation in human B cells. Pac Symp Biocomput 2009:264-75.
-
(2009)
Pac Symp Biocomput
, pp. 264-275
-
-
Wang, K.1
Alvarez, M.J.2
Bisikirska, B.C.3
-
17
-
-
66649127621
-
Mutations of multiple genes cause deregulation of NF-kappaB in diffuse large B-cell lymphoma
-
Compagno M, Lim WK, Grunn A, et al. Mutations of multiple genes cause deregulation of NF-kappaB in diffuse large B-cell lymphoma. Nature 2009;459:717-21.
-
(2009)
Nature
, vol.459
, pp. 717-721
-
-
Compagno, M.1
Lim, W.K.2
Grunn, A.3
-
18
-
-
35548931586
-
Functional specificity of a Hox protein mediated by the recognition of minor groove structure
-
Joshi R, Passner JM, Rohs R, et al. Functional specificity of a Hox protein mediated by the recognition of minor groove structure. Cell 2007;131:530-43.
-
(2007)
Cell
, vol.131
, pp. 530-543
-
-
Joshi, R.1
Passner, J.M.2
Rohs, R.3
-
19
-
-
33747824847
-
caGrid: design and implementation of the core architecture of the cancer biomedical informatics grid
-
Saltz J, Oster S, Hastings S, et al. caGrid: design and implementation of the core architecture of the cancer biomedical informatics grid. Bioinformatics 2006;22:1910-16.
-
(2006)
Bioinformatics
, vol.22
, pp. 1910-1916
-
-
Saltz, J.1
Oster, S.2
Hastings, S.3
-
20
-
-
0242490780
-
Cytoscape: a software environment for integrated models of biomolecular interaction networks
-
Shannon P, Markiel A, Ozier O, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 2003;13:2498-504.
-
(2003)
Genome Res
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
-
22
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, et al. Basic local alignment search tool. J Mol Biol 1990;215:403-10.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
-
23
-
-
84857183650
-
Cancer microarray informatics (caArray) data management and analysis tools at the National Cancer Institute (NCI) Center for Bioinformatics [abstract]
-
Heiskanen M, Lorenz J, Bian X, et al. Cancer microarray informatics (caArray) data management and analysis tools at the National Cancer Institute (NCI) Center for Bioinformatics [abstract]. Proc Am Assoc Canc Res 2005;46. http://aacrmeetingabstracts.org/cgi/content/abstract/2005/1/7-a.
-
(2005)
Proc Am Assoc Canc Res
, vol.46
-
-
Heiskanen, M.1
Lorenz, J.2
Bian, X.3
-
24
-
-
35349031626
-
Introduce: an open source toolkit for rapid development of strongly typed grid services
-
Hastings S, Oster S, Langella S, et al. Introduce: an open source toolkit for rapid development of strongly typed grid services. Journal of Grid Computing 2007;5:407-27. http://www.springerlink.com/content/u301u225wg5356w3/.
-
(2007)
Journal of Grid Computing
, vol.5
, pp. 407-427
-
-
Hastings, S.1
Oster, S.2
Langella, S.3
-
25
-
-
58049174042
-
genSpace: exploring social networking metaphors for knowledge sharing and scientific collaborative work
-
Murphy C, Sheth S, Kaiser G, et al. genSpace: exploring social networking metaphors for knowledge sharing and scientific collaborative work. 1st International Workshop on Social Software Engineering and Applications; 2008. http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?reload=true&arnumber=4686308.
-
(2008)
1st International Workshop on Social Software Engineering and Applications
-
-
Murphy, C.1
Sheth, S.2
Kaiser, G.3
-
27
-
-
33748191291
-
Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE
-
Foat BC, Morozov AV, Bussemaker HJ. Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE. Bioinformatics 2006;22:e141-9.
-
(2006)
Bioinformatics
, vol.22
-
-
Foat, B.C.1
Morozov, A.V.2
Bussemaker, H.J.3
-
28
-
-
73149109513
-
Harnessing gene expression to identify the genetic basis of drug resistance
-
Chen BJ, Causton HC, Mancenido D, et al. Harnessing gene expression to identify the genetic basis of drug resistance. Mol Syst Biol 2009;5:310.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 310
-
-
Chen, B.J.1
Causton, H.C.2
Mancenido, D.3
-
29
-
-
77649222742
-
Integrated biochemical and computational approach identifies BCL6 direct target genes controlling multiple pathways in normal germinal-center B cells
-
Basso K, Saito M, Sumazin P, et al. Integrated biochemical and computational approach identifies BCL6 direct target genes controlling multiple pathways in normal germinal-center B cells. Blood 2010;115:975-84.
-
(2010)
Blood
, vol.115
, pp. 975-984
-
-
Basso, K.1
Saito, M.2
Sumazin, P.3
|