-
1
-
-
84860698978
-
A network-based approach to quantifying the impact of biologically active substances
-
Hoeng J, Deehan R, Pratt D, et al. A network-based approach to quantifying the impact of biologically active substances. Drug Discov Today. 2012; 17(9-10):413-8.
-
(2012)
Drug Discov Today
, vol.17
, Issue.9-10
, pp. 413-418
-
-
Hoeng, J.1
Deehan, R.2
Pratt, D.3
-
2
-
-
79957884917
-
Genetic toxicology in the 21st century: Reflections and future directions
-
Mahadevan B, Snyder RD, Waters MD, et al. Genetic toxicology in the 21st century: reflections and future directions. Environ Mol Mutagen. 2011;52(5):339-354.
-
(2011)
Environ Mol Mutagen
, vol.52
, Issue.5
, pp. 339-354
-
-
Mahadevan, B.1
Snyder, R.D.2
Waters, M.D.3
-
3
-
-
84856079509
-
Accelerating the development of 21st-century toxicology: Outcome of a Human Toxicology Project Consortium workshop
-
Stephens ML, Barrow C, Andersen ME, et al. Accelerating the development of 21st-century toxicology: outcome of a Human Toxicology Project Consortium workshop. Toxicol Sci. 2012;125(2):327-334.
-
(2012)
Toxicol Sci
, vol.125
, Issue.2
, pp. 327-334
-
-
Stephens, M.L.1
Barrow, C.2
Andersen, M.E.3
-
4
-
-
79959759890
-
Construction of a computable cell proliferation network focused on non-diseased lung cells
-
Westra JW, Schlage WK, Frushour BP, et al. Construction of a computable cell proliferation network focused on non-diseased lung cells. BMC Syst Biol. 2011;5:105.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 105
-
-
Westra, J.W.1
Schlage, W.K.2
Frushour, B.P.3
-
5
-
-
84880849599
-
-
OpenBEL Consortium, Available at, Accessed Jun 21
-
OpenBEL Consortium. Available at: http://www.openbel.org. Accessed Jun 21, 2013.
-
(2013)
-
-
-
6
-
-
84880799176
-
-
Reverse Causal Reasoning. Available at. Accessed Jun 21
-
Selventa. Reverse Causal Reasoning. Available at: http://selventa.com/sites/selventa.drupalgardens.com/files/RCR%20Whitepaper.pdf. Accessed Jun 21, 2013.
-
(2013)
-
-
Selventa1
-
7
-
-
84861643512
-
Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks
-
Martin F, Thomson TM, Sewer A, et al. Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks. BMC Syst Biol. 2012;6:54.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 54
-
-
Martin, F.1
Thomson, T.M.2
Sewer, A.3
-
8
-
-
26944436699
-
Gene expression in normal human bronchial epithelial (NHBE) cells following in vitro exposure to cigarette smoke condensate
-
Fields WR, Leonard RM, Odom PS, Nordskog BK, Ogden MW, Doolittle DJ. Gene expression in normal human bronchial epithelial (NHBE) cells following in vitro exposure to cigarette smoke condensate. Toxicol Sci. 2005;86(1):84-91.
-
(2005)
Toxicol Sci
, vol.86
, Issue.1
, pp. 84-91
-
-
Fields, W.R.1
Leonard, R.M.2
Odom, P.S.3
Nordskog, B.K.4
Ogden, M.W.5
Doolittle, D.J.6
-
9
-
-
34548451594
-
Neutrophil elastase inhibition of cell cycle progression in airway epithelial cells in vitro is mediated by p27kip1
-
Fischer BM, Zheng S, Fan R, Voynow JA. Neutrophil elastase inhibition of cell cycle progression in airway epithelial cells in vitro is mediated by p27kip1. Am J Physiol Lung Cell Mol Physiol. 2007;293(3):L762-768.
-
(2007)
Am J Physiol Lung Cell Mol Physiol
, vol.293
, Issue.3
, pp. 762-768
-
-
Fischer, B.M.1
Zheng, S.2
Fan, R.3
Voynow, J.A.4
-
10
-
-
35348814982
-
IL-13-induced proliferation of airway epithelial cells: Mediation by intracellular growth factor mobilization and ADAM17
-
Booth BW, Sandifer T, Martin EL, Martin LD. IL-13-induced proliferation of airway epithelial cells: mediation by intracellular growth factor mobilization and ADAM17. Respir Res. 2007;8:51.
-
(2007)
Respir Res
, vol.8
, pp. 51
-
-
Booth, B.W.1
Sandifer, T.2
Martin, E.L.3
Martin, L.D.4
-
11
-
-
71849090786
-
Tissue remodeling induced by hypersecreted epidermal growth factor and amphiregulin in the airway after an acute asthma attack
-
Enomoto Y, Orihara K, Takamasu T, et al. Tissue remodeling induced by hypersecreted epidermal growth factor and amphiregulin in the airway after an acute asthma attack. J Allergy Clin Immunol. 2009;124(5):913-20.
-
(2009)
J Allergy Clin Immunol
, vol.124
, Issue.5
, pp. 913-920
-
-
Enomoto, Y.1
Orihara, K.2
Takamasu, T.3
-
12
-
-
33646444723
-
Clarithromycin delays progression of bronchial epithelial cells from G1 phase to S phase and delays cell growth via extracellular signal-regulated protein kinase suppression
-
Shinkai M, Tamaoki J, Kobayashi H, et al. Clarithromycin delays progression of bronchial epithelial cells from G1 phase to S phase and delays cell growth via extracellular signal-regulated protein kinase suppression. Antimicrob Agents Chemother. 2006;50(5):1738-1744.
-
(2006)
Antimicrob Agents Chemother
, vol.50
, Issue.5
, pp. 1738-1744
-
-
Shinkai, M.1
Tamaoki, J.2
Kobayashi, H.3
-
13
-
-
9444228344
-
Specific inhibition of cyclin-dependent kinase 4/6 by PD 0332991 and associated antitumor activity in human tumor xenografts
-
Fry DW, Harvey PJ, Keller PR, et al. Specific inhibition of cyclin-dependent kinase 4/6 by PD 0332991 and associated antitumor activity in human tumor xenografts. Mol Cancer Ther. 2004;3(11):1427-1438.
-
(2004)
Mol Cancer Ther
, vol.3
, Issue.11
, pp. 1427-1438
-
-
Fry, D.W.1
Harvey, P.J.2
Keller, P.R.3
-
14
-
-
76049104235
-
PD 0332991, a selective cyclin D kinase 4/6 inhibitor, preferentially inhibits proliferation of luminal estrogen receptor-positive human breast cancer cell lines in vitro
-
Finn RS, Dering J, Conklin D, et al. PD 0332991, a selective cyclin D kinase 4/6 inhibitor, preferentially inhibits proliferation of luminal estrogen receptor-positive human breast cancer cell lines in vitro. Breast Cancer Res. 2009;11(5):R77.
-
(2009)
Breast Cancer Res
, vol.11
, Issue.5
, pp. 77
-
-
Finn, R.S.1
Dering, J.2
Conklin, D.3
-
15
-
-
34250372017
-
Expression of p16Ink4a compensates for p18Ink4c loss in cyclin-dependent kinase 4/6-dependent tumors and tissues
-
Ramsey MR, Krishnamurthy J, Pei XH, et al. Expression of p16Ink4a compensates for p18Ink4c loss in cyclin-dependent kinase 4/6-dependent tumors and tissues. Cancer Res. 2007;67(10):4732-4741.
-
(2007)
Cancer Res
, vol.67
, Issue.10
, pp. 4732-4741
-
-
Ramsey, M.R.1
Krishnamurthy, J.2
Pei, X.H.3
-
16
-
-
33745076446
-
Pharmacologic inhibition of cyclindependent kinase 4/6 activity arrests proliferation in myoblasts and rhabdomyosarcoma-derived cells
-
Saab R, Bills JL, Miceli AP, et al. Pharmacologic inhibition of cyclindependent kinase 4/6 activity arrests proliferation in myoblasts and rhabdomyosarcoma-derived cells. Mol Cancer Ther. 2006;5(5): 1299-1308.
-
(2006)
Mol Cancer Ther
, vol.5
, Issue.5
, pp. 1299-1308
-
-
Saab, R.1
Bills, J.L.2
Miceli, A.P.3
-
17
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A, Tamayo P, Mootha VK, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005;102(43):15545-15550.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, Issue.43
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
-
18
-
-
79958135926
-
Molecular signatures database (MSigDB) 3.0
-
Liberzon A, Subramanian A, Pinchback R, Thorvaldsdóttir H, Tamayo P, Mesirov JP. Molecular signatures database (MSigDB) 3.0. Bioinformatics. 2011;27(12):1739-1740.
-
(2011)
Bioinformatics
, vol.27
, Issue.12
, pp. 1739-1740
-
-
Liberzon, A.1
Subramanian, A.2
Pinchback, R.3
Thorvaldsdóttir, H.4
Tamayo, P.5
Mesirov, J.P.6
-
19
-
-
84880814048
-
-
Selventa Technology Platform, Available at, Accessed Jun 21, 2013
-
Selventa. Selventa Technology Platform. 2013; Available at: http://www.selventa.com. Accessed Jun 21, 2013.
-
(2013)
-
-
Selventa1
-
20
-
-
27844445642
-
Perturbations of the AKT signaling pathway in human cancer
-
Altomare DA, Testa JR. Perturbations of the AKT signaling pathway in human cancer. Oncogene. 2005;24(50):7455-7464.
-
(2005)
Oncogene
, vol.24
, Issue.50
, pp. 7455-7464
-
-
Altomare, D.A.1
Testa, J.R.2
-
21
-
-
8644231811
-
RhoA and Rac1 are both required for efficient wound closure of airway epithelial cells
-
Desai LP, Aryal AM, Ceacareanu B, Hassid A, Waters CM. RhoA and Rac1 are both required for efficient wound closure of airway epithelial cells. Am J Physiol Lung Cell Mol Physiol. 2004;287(6):L1134-1144.
-
(2004)
Am J Physiol Lung Cell Mol Physiol
, vol.287
, Issue.6
, pp. 1134-1144
-
-
Desai, L.P.1
Aryal, A.M.2
Ceacareanu, B.3
Hassid, A.4
Waters, C.M.5
-
22
-
-
0142084720
-
Pase signaling modulates cell shape and contractile phenotype in an isoactin-specific manner
-
Kolyada AY, Riley KN, Herman IM, Rho GT Pase signaling modulates cell shape and contractile phenotype in an isoactin-specific manner. Am J Physiol, Cell Physiol. 2003;285(5):C1116-1121.
-
(2003)
Am J Physiol, Cell Physiol
, vol.285
, Issue.5
, pp. 1116-1121
-
-
Kolyada, A.Y.1
Riley, K.N.2
Herman, I.M.3
Rho, G.T.4
-
23
-
-
0028236846
-
Induction of WAF1/CIP1 by a p53-independent pathway
-
Michieli P, Chedid M, Lin D, Pierce JH, Mercer WE, Givol D. Induction of WAF1/CIP1 by a p53-independent pathway. Cancer Res. 1994;54(13): 3391-3395.
-
(1994)
Cancer Res
, vol.54
, Issue.13
, pp. 3391-3395
-
-
Michieli, P.1
Chedid, M.2
Lin, D.3
Pierce, J.H.4
Mercer, W.E.5
Givol, D.6
-
24
-
-
2342618936
-
Multiple roles of the PI3K/PKB (Akt) pathway in cell cycle progression
-
Liang J, Slingerland JM. Multiple roles of the PI3K/PKB (Akt) pathway in cell cycle progression. Cell Cycle. 2003;2(4):336-342.
-
(2003)
Cell Cycle
, vol.2
, Issue.4
, pp. 336-342
-
-
Liang, J.1
Slingerland, J.M.2
-
25
-
-
51849084360
-
The PTEN-PI3K pathway: Of feedbacks and cross-talks
-
Carracedo A, Pandolfi PP. The PTEN-PI3K pathway: of feedbacks and cross-talks. Oncogene. 2008;27(41):5527-5541.
-
(2008)
Oncogene
, vol.27
, Issue.41
, pp. 5527-5541
-
-
Carracedo, A.1
Pandolfi, P.P.2
-
26
-
-
84865981127
-
Automatic generation of causal networks linking growth factor stimuli to functional cell state changes
-
Guziolowski C, Kittas A, Dittmann F, Grabe N. Automatic generation of causal networks linking growth factor stimuli to functional cell state changes. FEBS J. 2012;279(18):3462-3474.
-
(2012)
FEBS J
, vol.279
, Issue.18
, pp. 3462-3474
-
-
Guziolowski, C.1
Kittas, A.2
Dittmann, F.3
Grabe, N.4
-
27
-
-
84863011640
-
Combined experimental and computational analysis of DNA damage signaling reveals context-dependent roles for Erk in apoptosis and G1/S arrest after genotoxic stress
-
Tentner AR, Lee MJ, Ostheimer GJ, Samson LD, Lauffenburger DA, Yaffe MB. Combined experimental and computational analysis of DNA damage signaling reveals context-dependent roles for Erk in apoptosis and G1/S arrest after genotoxic stress. Mol Syst Biol. 2012;8:568.
-
(2012)
Mol Syst Biol
, vol.8
, pp. 568
-
-
Tentner, A.R.1
Lee, M.J.2
Ostheimer, G.J.3
Samson, L.D.4
Lauffenburger, D.A.5
Yaffe, M.B.6
-
28
-
-
84864258618
-
A whole-cell computational model predicts phenotype from genotype
-
Karr JR, Sanghvi JC, Macklin DN, et al. A whole-cell computational model predicts phenotype from genotype. Cell. 2012;150(2):389-401.
-
(2012)
Cell
, vol.150
, Issue.2
, pp. 389-401
-
-
Karr, J.R.1
Sanghvi, J.C.2
Macklin, D.N.3
-
29
-
-
80455178749
-
Transcriptional gene network inference from a massive dataset elucidates transcriptome organization and gene function
-
Belcastro V, Siciliano V, Gregoretti F, et al. Transcriptional gene network inference from a massive dataset elucidates transcriptome organization and gene function. Nucleic Acids Res. 2011;39(20):8677-8688.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.20
, pp. 8677-8688
-
-
Belcastro, V.1
Siciliano, V.2
Gregoretti, F.3
-
30
-
-
78650647490
-
A comprehensive map of the mTOR signaling network
-
Caron E, Ghosh S, Matsuoka Y, et al. A comprehensive map of the mTOR signaling network. Mol Syst Biol. 2010;6:453.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 453
-
-
Caron, E.1
Ghosh, S.2
Matsuoka, Y.3
-
31
-
-
77952794294
-
Payao: A community platform for SBML pathway model curation
-
Matsuoka Y, Ghosh S, Kikuchi N, Kitano H. Payao: a community platform for SBML pathway model curation. Bioinformatics. 2010;26(10):1381-1383.
-
(2010)
Bioinformatics
, vol.26
, Issue.10
, pp. 1381-1383
-
-
Matsuoka, Y.1
Ghosh, S.2
Kikuchi, N.3
Kitano, H.4
-
32
-
-
80054106639
-
A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue
-
Schlage WK, Westra JW, Gebel S, et al. A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue. BMC Syst Biol. 2011;5:168.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 168
-
-
Schlage, W.K.1
Westra, J.W.2
Gebel, S.3
-
33
-
-
84874921123
-
Construction of a computable network model for DNA damage, autophagy, cell death, and senescence
-
Gebel S, Lichtner RB, Frushour B, et al. Construction of a computable network model for DNA damage, autophagy, cell death, and senescence. Bioinform Biol Insights. 2013;7:97-117.
-
(2013)
Bioinform Biol Insights
, vol.7
, pp. 97-117
-
-
Gebel, S.1
Lichtner, R.B.2
Frushour, B.3
-
34
-
-
84880807708
-
Construction of a Computable Network Model of Tissue Repair and Angiogenesis in the Lung
-
002
-
Park JS, Schlage WK, Frushour BP, et al. Construction of a Computable Network Model of Tissue Repair and Angiogenesis in the Lung. J Clinic Toxicol. 2013:S12-002.
-
(2013)
J Clinic Toxicol
, pp. 12
-
-
Park, J.S.1
Schlage, W.K.2
Frushour, B.P.3
-
35
-
-
84879307956
-
A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue
-
Westra JW, Schlage WK, Hengstermann A, et al. A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue. Bioinform Biol Insights. 2013;7:167-192.
-
(2013)
Bioinform Biol Insights
, vol.7
, pp. 167-192
-
-
Westra, J.W.1
Schlage, W.K.2
Hengstermann, A.3
-
36
-
-
84880766459
-
-
Background adjustment using sequence information. gcrma. Available at, Accessed Jun 21
-
Background adjustment using sequence information. gcrma. Available at: http://bioconductor.org/packages/2.2/bioc/html/gcrma.html. Accessed Jun 21, 2013.
-
(2013)
-
-
-
37
-
-
84880769812
-
-
Molecular Signatures Database. Canonical pathway subset of the C2 collection. Available at, Accessed Jun 21
-
Molecular Signatures Database. Canonical pathway subset of the C2 collection. Available at: http://www.broadinstitute.org/gsea/msigdb/index.jsp. Accessed Jun 21, 2013.
-
(2013)
-
-
-
38
-
-
80051932807
-
APCluster: An R package for affinity propagation clustering
-
Bodenhofer U, Kothmeier A, Hochreiter S. APCluster: an R package for affinity propagation clustering. Bioinformatics. 2011;27(17):2463-2464.
-
(2011)
Bioinformatics
, vol.27
, Issue.17
, pp. 2463-2464
-
-
Bodenhofer, U.1
Kothmeier, A.2
Hochreiter, S.3
-
39
-
-
33847172327
-
Clustering by passing messages between data points
-
Frey BJ, Dueck D. Clustering by passing messages between data points. Science. 2007;315(5814):972-976.
-
(2007)
Science
, vol.315
, Issue.5814
, pp. 972-976
-
-
Frey, B.J.1
Dueck, D.2
|