-
1
-
-
78650323671
-
Predictive, preventive, personalized and participatory medicine: back to the future
-
Auffray C, Charron D, Hood L. Predictive, preventive, personalized and participatory medicine: back to the future. Genome Med 2010;2:57.
-
(2010)
Genome Med
, vol.2
, pp. 57
-
-
Auffray, C.1
Charron, D.2
Hood, L.3
-
2
-
-
79952431304
-
Predictive, personalized, preventive, participatory (P4) cancer medicine
-
Hood L, Friend SH. Predictive, personalized, preventive, participatory (P4) cancer medicine. Nat Rev Clin Oncol 2011;8:184-7.
-
(2011)
Nat Rev Clin Oncol
, vol.8
, pp. 184-187
-
-
Hood, L.1
Friend, S.H.2
-
3
-
-
84865429505
-
A personal view on systems medicine and the emergence of proactive P4 medicine: predictive, preventive, personalized and participatory
-
Hood L, Flores M. A personal view on systems medicine and the emergence of proactive P4 medicine: predictive, preventive, personalized and participatory. N Biotechnol 2012;29:613-24.
-
(2012)
N Biotechnol
, vol.29
, pp. 613-624
-
-
Hood, L.1
Flores, M.2
-
4
-
-
84871146634
-
Personal genomes and precision medicine
-
Highnam G, Mittelman D. Personal genomes and precision medicine. Genome Biol 2012;13:324.
-
(2012)
Genome Biol
, vol.13
, pp. 324
-
-
Highnam, G.1
Mittelman, D.2
-
5
-
-
84905370049
-
Tracking genomic cancer evolution for precision medicine: the lung TRACERx study
-
Jamal-Hanjani M, Hackshaw A, Ngai Y, et al. Tracking genomic cancer evolution for precision medicine: the lung TRACERx study. PLoS Biol 2014;12:e1001906.
-
(2014)
PLoS Biol
, vol.12
-
-
Jamal-Hanjani, M.1
Hackshaw, A.2
Ngai, Y.3
-
6
-
-
84902148239
-
Whole-exome sequencing and clinical interpretation of formalin-fixed, paraffin-embedded tumor samples to guide precision cancer medicine
-
Van Allen EM, Wagle N, Stojanov P, et al. Whole-exome sequencing and clinical interpretation of formalin-fixed, paraffin-embedded tumor samples to guide precision cancer medicine. Nat Med 2014;20:682-8.
-
(2014)
Nat Med
, vol.20
, pp. 682-688
-
-
Van Allen, E.M.1
Wagle, N.2
Stojanov, P.3
-
7
-
-
84923673213
-
Precision medicine in breast cancer: genes, genomes, and the future of genomically driven treatments
-
Stover DG, Wagle N. Precision medicine in breast cancer: genes, genomes, and the future of genomically driven treatments. Curr Oncol Rep 2015;17:438.
-
(2015)
Curr Oncol Rep
, vol.17
, pp. 438
-
-
Stover, D.G.1
Wagle, N.2
-
8
-
-
84924413329
-
Obama's Precision Medicine Initiative
-
Terry SF. Obama's Precision Medicine Initiative. Genet Test Mol Biomarkers 2015;19:113-14.
-
(2015)
Genet Test Mol Biomarkers
, vol.19
, pp. 113-114
-
-
Terry, S.F.1
-
9
-
-
84925581553
-
Obama seeks $213m to fund "precision medicine"
-
McCarthy M. Obama seeks $213m to fund "precision medicine". BMJ 2015;350:h587.
-
(2015)
BMJ
, vol.350
-
-
McCarthy, M.1
-
10
-
-
84923762812
-
A new initiative on precision medicine
-
Collins FS, Varmus H. A new initiative on precision medicine. N Engl J Med 2015;372:793-5.
-
(2015)
N Engl J Med
, vol.372
, pp. 793-795
-
-
Collins, F.S.1
Varmus, H.2
-
11
-
-
84991344826
-
Obama 2016 budget calls for precision medicine
-
Obama 2016 budget calls for precision medicine. Nat Biotechnol 2015;33:216.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 216
-
-
-
12
-
-
84923309434
-
UK catapults precision medicine
-
UK catapults precision medicine. Nat Biotechnol 2015;33:119.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 119
-
-
-
13
-
-
78650114702
-
National Institutes of Health.A government niche for translational medicine and drug development
-
Kaiser J. National Institutes of Health. A government niche for translational medicine and drug development. Science 2010;330:1462-3.
-
(2010)
Science
, vol.330
, pp. 1462-1463
-
-
Kaiser, J.1
-
14
-
-
77149152809
-
Translational medicine: an engine of change for bringing new technology to community health
-
Milne CP, Kaitin KI. Translational medicine: an engine of change for bringing new technology to community health. Sci Transl Med 2009;1:5cm5.
-
(2009)
Sci Transl Med
, vol.1
-
-
Milne, C.P.1
Kaitin, K.I.2
-
15
-
-
78149343523
-
Mathematical modeling of molecular data in translational medicine: theoretical considerations
-
Marko NF, Weil RJ. Mathematical modeling of molecular data in translational medicine: theoretical considerations. Sci Transl Med 2010;2:56rv54.
-
(2010)
Sci Transl Med
, vol.2
-
-
Marko, N.F.1
Weil, R.J.2
-
16
-
-
77956470019
-
Translational medicine and the value of biomarker qualification
-
Goodsaid FM, Mendrick DL. Translational medicine and the value of biomarker qualification. Sci Transl Med 2010;2:47ps44.
-
(2010)
Sci Transl Med
, vol.2
-
-
Goodsaid, F.M.1
Mendrick, D.L.2
-
17
-
-
84867125470
-
Translational medicine in China
-
Zhang J. Translational medicine in China. Sci China Life Sci 2012;55:834-6.
-
(2012)
Sci China Life Sci
, vol.55
, pp. 834-836
-
-
Zhang, J.1
-
19
-
-
84856095538
-
Improving the efficacy of translational medicine by optimally integrating health care, academia and industry
-
Bornstein SR, Licinio J. Improving the efficacy of translational medicine by optimally integrating health care, academia and industry. Nat Med 2011;17:1567-9.
-
(2011)
Nat Med
, vol.17
, pp. 1567-1569
-
-
Bornstein, S.R.1
Licinio, J.2
-
20
-
-
84893431595
-
Progeria: a paradigm for translational medicine
-
Gordon LB, Rothman FG, Lopez-Otin C, et al. Progeria: a paradigm for translational medicine. Cell 2014;156:400-7.
-
(2014)
Cell
, vol.156
, pp. 400-407
-
-
Gordon, L.B.1
Rothman, F.G.2
Lopez-Otin, C.3
-
21
-
-
84859741480
-
Detecting early-warning signals for sudden deterioration of complex diseases by dynamical network biomarkers
-
Chen L, Liu R, Liu ZP, et al. Detecting early-warning signals for sudden deterioration of complex diseases by dynamical network biomarkers. Sci Rep 2012;2:342.
-
(2012)
Sci Rep
, vol.2
, pp. 342
-
-
Chen, L.1
Liu, R.2
Liu, Z.P.3
-
22
-
-
51349125241
-
Big data: the next Google.Interview by Duncan Graham-Rowe
-
Buxton B, Hayward V, Pearson I, et al. Big data: the next Google. Interview by Duncan Graham-Rowe. Nature 2008;455:8-9.
-
(2008)
Nature
, vol.455
, pp. 8-9
-
-
Buxton, B.1
Hayward, V.2
Pearson, I.3
-
23
-
-
84871549881
-
Comparison of metagenomic samples using sequence signatures
-
Jiang B, Song K, Ren J, et al. Comparison of metagenomic samples using sequence signatures. BMC Genomics 2012; 13:730.
-
(2012)
BMC Genomics
, vol.13
, pp. 730
-
-
Jiang, B.1
Song, K.2
Ren, J.3
-
24
-
-
84887617966
-
Opportunities and methods for studying alternative splicing in cancer with RNA-Seq
-
Feng H, Qin Z, Zhang X. Opportunities and methods for studying alternative splicing in cancer with RNA-Seq. Cancer Lett 2013;340:179-91.
-
(2013)
Cancer Lett
, vol.340
, pp. 179-191
-
-
Feng, H.1
Qin, Z.2
Zhang, X.3
-
25
-
-
84922756988
-
Limited sampling hampers "big data" estimation of species richness in a tropical biodiversity hotspot
-
Engemann K, Enquist BJ, Sandel B, et al. Limited sampling hampers "big data" estimation of species richness in a tropical biodiversity hotspot. Ecol Evol 2015;5:807-20.
-
(2015)
Ecol Evol
, vol.5
, pp. 807-820
-
-
Engemann, K.1
Enquist, B.J.2
Sandel, B.3
-
26
-
-
84925286056
-
Using "big data" to dissect clinical heterogeneity
-
Altman RB, Ashley EA. Using "big data" to dissect clinical heterogeneity. Circulation 2015;131:232-3.
-
(2015)
Circulation
, vol.131
, pp. 232-233
-
-
Altman, R.B.1
Ashley, E.A.2
-
27
-
-
84922655439
-
Big biological data: challenges and opportunities
-
Li Y, Chen L. Big biological data: challenges and opportunities. Genomics Proteomics Bioinformatics 2014;12:187-9.
-
(2014)
Genomics Proteomics Bioinformatics
, vol.12
, pp. 187-189
-
-
Li, Y.1
Chen, L.2
-
28
-
-
84908867288
-
Computational systems biology in the big data era
-
Wang Y, Zhang XS, Chen L. Computational systems biology in the big data era. BMC Syst Biol 2013;7 (Suppl 2):S1.
-
(2013)
BMC Syst Biol
, vol.7
, pp. S1
-
-
Wang, Y.1
Zhang, X.S.2
Chen, L.3
-
29
-
-
84893156375
-
Gaussian graphical model for identifying significantly responsive regulatory networks from time course high-throughput data
-
Liu ZP, Zhang W, Horimoto K, et al. Gaussian graphical model for identifying significantly responsive regulatory networks from time course high-throughput data. IET Syst Biol 2013;7:143-52.
-
(2013)
IET Syst Biol
, vol.7
, pp. 143-152
-
-
Liu, Z.P.1
Zhang, W.2
Horimoto, K.3
-
30
-
-
0742305866
-
Network biology: understanding the cell's functional organization
-
Barabasi AL, Oltvai ZN. Network biology: understanding the cell's functional organization. Nat Rev Genet 2004;5:101-13.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
32
-
-
84887815759
-
Network biomarkers reveal dysfunctional gene regulations during disease progression
-
Zeng T, Sun SY, Wang Y, et al. Network biomarkers reveal dysfunctional gene regulations during disease progression. FEBS J 2013;280:5682-95.
-
(2013)
FEBS J
, vol.280
, pp. 5682-5695
-
-
Zeng, T.1
Sun, S.Y.2
Wang, Y.3
-
33
-
-
84897433296
-
Early diagnosis of complex diseases by molecular biomarkers, network biomarkers, and dynamical network biomarkers
-
Liu R, Wang X, Aihara K, et al. Early diagnosis of complex diseases by molecular biomarkers, network biomarkers, and dynamical network biomarkers. Med Res Rev 2014;34:455-78. doi:10.1002/med.21293.
-
(2014)
Med Res Rev
, vol.34
, pp. 455-478
-
-
Liu, R.1
Wang, X.2
Aihara, K.3
-
34
-
-
84922004018
-
Edge biomarkers for classification and prediction of phenotypes
-
Zeng T, Zhang W, Yu X, et al. Edge biomarkers for classification and prediction of phenotypes. Sci China Life Sci 2014;57:1103-14.
-
(2014)
Sci China Life Sci
, vol.57
, pp. 1103-1114
-
-
Zeng, T.1
Zhang, W.2
Yu, X.3
-
35
-
-
84889606541
-
Edgotype: a fundamental link between genotype and phenotype
-
Sahni N, Yi S, Zhong Q, et al. Edgotype: a fundamental link between genotype and phenotype. Curr Opin Genet Dev 2013;23:649-57.
-
(2013)
Curr Opin Genet Dev
, vol.23
, pp. 649-657
-
-
Sahni, N.1
Yi, S.2
Zhong, Q.3
-
36
-
-
84907653864
-
EdgeMarker: identifying differentially correlated molecule pairs as edge-biomarkers
-
Zhang W, Zeng T, Chen L. EdgeMarker: identifying differentially correlated molecule pairs as edge-biomarkers. J Theor Biol 2014;362:35-43.
-
(2014)
J Theor Biol
, vol.362
, pp. 35-43
-
-
Zhang, W.1
Zeng, T.2
Chen, L.3
-
37
-
-
84887828585
-
Spatio-temporal analysis of type 2 diabetes mellitus based on differential expression networks
-
Sun SY, Liu ZP, Zeng T, et al. Spatio-temporal analysis of type 2 diabetes mellitus based on differential expression networks. Sci Rep 2013;3:2268.
-
(2013)
Sci Rep
, vol.3
, pp. 2268
-
-
Sun, S.Y.1
Liu, Z.P.2
Zeng, T.3
-
38
-
-
10244219943
-
A statistical method for identifying differential gene-gene co-expression patterns
-
Lai Y, Wu B, Chen L, et al. A statistical method for identifying differential gene-gene co-expression patterns. Bioinformatics 2004;20:3146-55.
-
(2004)
Bioinformatics
, vol.20
, pp. 3146-3155
-
-
Lai, Y.1
Wu, B.2
Chen, L.3
-
39
-
-
84901457642
-
Systems biology with omics data
-
Chen L. Systems biology with omics data. Methods 2014;67:267-8.
-
(2014)
Methods
, vol.67
, pp. 267-268
-
-
Chen, L.1
-
40
-
-
84858433310
-
Personal omics profiling reveals dynamic molecular and medical phenotypes
-
Chen R, Mias GI, Li-Pook-Than J, et al. Personal omics profiling reveals dynamic molecular and medical phenotypes. Cell 2012;148:1293-307.
-
(2012)
Cell
, vol.148
, pp. 1293-1307
-
-
Chen, R.1
Mias, G.I.2
Li-Pook-Than, J.3
-
41
-
-
84909578095
-
Prediction of dynamical drug sensitivity and resistance by module network rewiring-analysis based on transcriptional profiling
-
Zeng T, Wang DC, Wang X, et al. Prediction of dynamical drug sensitivity and resistance by module network rewiring-analysis based on transcriptional profiling. Drug Resist Updat 2014;17:64-76.
-
(2014)
Drug Resist Updat
, vol.17
, pp. 64-76
-
-
Zeng, T.1
Wang, D.C.2
Wang, X.3
-
42
-
-
84938867264
-
Diagnosing phenotypes of single-sample individuals by edge biomarkers
-
Zhang W, Zeng T, Liu X, et al. Diagnosing phenotypes of single-sample individuals by edge biomarkers. J Mol Cell Biol 2015;7:231-41.
-
(2015)
J Mol Cell Biol
, vol.7
, pp. 231-241
-
-
Zhang, W.1
Zeng, T.2
Liu, X.3
-
43
-
-
84884475470
-
Independent validation of a model using cell line chemosensitivity to predict response to therapy
-
Wang W, Baggerly KA, Knudsen S, et al. Independent validation of a model using cell line chemosensitivity to predict response to therapy. J Natl Cancer Inst 2013;105:1284-91.
-
(2013)
J Natl Cancer Inst
, vol.105
, pp. 1284-1291
-
-
Wang, W.1
Baggerly, K.A.2
Knudsen, S.3
-
44
-
-
84920261036
-
Using drug response data to identify molecular effectors, and molecular "omic" data to identify candidate drugs in cancer
-
Reinhold WC, Varma S, Rajapakse VN, et al. Using drug response data to identify molecular effectors, and molecular "omic" data to identify candidate drugs in cancer. Hum Genet 2015;134:3-11.
-
(2015)
Hum Genet
, vol.134
, pp. 3-11
-
-
Reinhold, W.C.1
Varma, S.2
Rajapakse, V.N.3
-
45
-
-
84873279841
-
GWAS meets TCGA to illuminatemechanisms of cancer predisposition
-
Kim HS, Minna JD, White MA. GWAS meets TCGA to illuminatemechanisms of cancer predisposition. Cell 2013;152:387-9.
-
(2013)
Cell
, vol.152
, pp. 387-389
-
-
Kim, H.S.1
Minna, J.D.2
White, M.A.3
-
46
-
-
84885137302
-
Exploring TCGA Pan-Cancer data at the UCSC Cancer Genomics Browser
-
Cline MS, Craft B, Swatloski T, et al. Exploring TCGA Pan-Cancer data at the UCSC Cancer Genomics Browser. Sci Rep 2013;3:2652.
-
(2013)
Sci Rep
, vol.3
, pp. 2652
-
-
Cline, M.S.1
Craft, B.2
Swatloski, T.3
-
47
-
-
84874271270
-
NCBI GEO: archive for functional genomics data sets-update
-
Barrett T, Wilhite SE, Ledoux P, et al. NCBI GEO: archive for functional genomics data sets-update. Nucleic Acids Res 2013;41:D991-5.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D991-D995
-
-
Barrett, T.1
Wilhite, S.E.2
Ledoux, P.3
-
48
-
-
78651339534
-
NCBI GEO: archive for functional genomics data sets-10 years on
-
Barrett T, Troup DB, Wilhite SE, et al. NCBI GEO: archive for functional genomics data sets-10 years on. Nucleic Acids Res 2011;39:D1005-10.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D1005-D1010
-
-
Barrett, T.1
Troup, D.B.2
Wilhite, S.E.3
-
49
-
-
84883577718
-
Analysis Tool Web Services from the EMBL-EBI
-
McWilliam H, Li W, Uludag M, et al. Analysis Tool Web Services from the EMBL-EBI. Nucleic Acids Res 2013;41:W597-600.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W597-W600
-
-
McWilliam, H.1
Li, W.2
Uludag, M.3
-
50
-
-
77954296666
-
A new bioinformatics analysis tools framework at EMBL-EBI
-
Goujon M, McWilliam H, Li W, et al. A new bioinformatics analysis tools framework at EMBL-EBI. Nucleic Acids Res 2010;38:W695-9.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W695-W699
-
-
Goujon, M.1
McWilliam, H.2
Li, W.3
-
51
-
-
84906561393
-
GigaDB: promoting data dissemination and reproducibility
-
Sneddon TP, Zhe XS, Edmunds SC, et al. GigaDB: promoting data dissemination and reproducibility. Database (Oxford) 2014;2014:bau018.
-
(2014)
Database (Oxford)
, vol.2014
-
-
Sneddon, T.P.1
Zhe, X.S.2
Edmunds, S.C.3
-
53
-
-
84866163733
-
Genomics: ENCODE leads the way on big data
-
Gerstein M. Genomics: ENCODE leads the way on big data. Nature 2012;489:208.
-
(2012)
Nature
, vol.489
, pp. 208
-
-
Gerstein, M.1
-
54
-
-
84923365627
-
Compound signature detection on LINCS L1000 big data
-
Liu C, Su J, Yang F, et al. Compound signature detection on LINCS L1000 big data. Mol Biosyst 2015;11:714-22.
-
(2015)
Mol Biosyst
, vol.11
, pp. 714-722
-
-
Liu, C.1
Su, J.2
Yang, F.3
-
55
-
-
84904811883
-
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures
-
Duan Q, Flynn C, Niepel M, et al. LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures. Nucleic Acids Res 2014;42:W449-60.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. W449-W460
-
-
Duan, Q.1
Flynn, C.2
Niepel, M.3
-
56
-
-
84858983547
-
KEGG for integration and interpretation of large-scale molecular data sets
-
Kanehisa M, Goto S, Sato Y, et al. KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res 2012;40:D109-14.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D109-D114
-
-
Kanehisa, M.1
Goto, S.2
Sato, Y.3
-
57
-
-
0032919364
-
KEGG: Kyoto Encyclopedia of Genes and Genomes
-
Ogata H, Goto S, Sato K, et al. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res 1999;27:29-34.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 29-34
-
-
Ogata, H.1
Goto, S.2
Sato, K.3
-
58
-
-
78651324347
-
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored
-
Szklarczyk D, Franceschini A, Kuhn M, et al. The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res 2011;39:D561-8.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D561-D568
-
-
Szklarczyk, D.1
Franceschini, A.2
Kuhn, M.3
-
60
-
-
79951744727
-
Preface: RECOMB Conference on Systems Biology, Regulatory Genomics, and DREAM Challenges 2010 special issue
-
Kellis M, Califano A, Bar-Joseph Z. Preface: RECOMB Conference on Systems Biology, Regulatory Genomics, and DREAM Challenges 2010 special issue. J Comput Biol 2011;18:131.
-
(2011)
J Comput Biol
, vol.18
, pp. 131
-
-
Kellis, M.1
Califano, A.2
Bar-Joseph, Z.3
-
61
-
-
84925340868
-
Predicting cancer drug response: advancing the DREAM
-
Altman RB. Predicting cancer drug response: advancing the DREAM. Cancer Discov 2015;5:237-8.
-
(2015)
Cancer Discov
, vol.5
, pp. 237-238
-
-
Altman, R.B.1
-
62
-
-
77956059154
-
Genome-wide searching of rare genetic variants in WTCCC data
-
Feng T, Zhu X. Genome-wide searching of rare genetic variants in WTCCC data. Hum Genet 2010;128:269-80.
-
(2010)
Hum Genet
, vol.128
, pp. 269-280
-
-
Feng, T.1
Zhu, X.2
-
63
-
-
84859169877
-
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity
-
Barretina J, Caponigro G, Stransky N, et al. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 2012;483:603-7.
-
(2012)
Nature
, vol.483
, pp. 603-607
-
-
Barretina, J.1
Caponigro, G.2
Stransky, N.3
-
64
-
-
79551587720
-
Cytoscape 2.8: new features for data integration and network visualization
-
Smoot ME, Ono K, Ruscheinski J, et al. Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics 2011;27:431-2.
-
(2011)
Bioinformatics
, vol.27
, pp. 431-432
-
-
Smoot, M.E.1
Ono, K.2
Ruscheinski, J.3
-
65
-
-
77956548953
-
Cytoscape Web: an interactive web-based network browser
-
Lopes CT, Franz M, Kazi F, et al. Cytoscape Web: an interactive web-based network browser. Bioinformatics 2010;26:2347-8.
-
(2010)
Bioinformatics
, vol.26
, pp. 2347-2348
-
-
Lopes, C.T.1
Franz, M.2
Kazi, F.3
-
66
-
-
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
-
67
-
-
84894571860
-
Causal analysis approaches in ingenuity pathway analysis
-
Kramer A, Green J, Pollard J, Jr, et al. Causal analysis approaches in ingenuity pathway analysis. Bioinformatics 2014;30:523-30.
-
(2014)
Bioinformatics
, vol.30
, pp. 523-530
-
-
Kramer, A.1
Green, J.2
Pollard, J.3
-
68
-
-
84975742565
-
A map of human genome variation from population-scale sequencing
-
Abecasis GR, Altshuler D, Auton A, et al. A map of human genome variation from population-scale sequencing. Nature 2010;467:1061-73.
-
(2010)
Nature
, vol.467
, pp. 1061-1073
-
-
Abecasis, G.R.1
Altshuler, D.2
Auton, A.3
-
69
-
-
84975795680
-
An integrated map of genetic variation from 1, 092 human genomes
-
Abecasis GR, Auton A, Brooks LD, et al. An integrated map of genetic variation from 1, 092 human genomes. Nature 2012;491:56-65.
-
(2012)
Nature
, vol.491
, pp. 56-65
-
-
Abecasis, G.R.1
Auton, A.2
Brooks, L.D.3
-
70
-
-
84991340763
-
-
The 100, 000 Genomes Project
-
The 100, 000 Genomes Project. http://www.genomicseng land.co.uk/the-100000-genomes-project/
-
-
-
-
71
-
-
84991304587
-
-
100K Wellness Project
-
100K Wellness Project. http://research.systemsbiology.net/100k/
-
-
-
-
72
-
-
84924095064
-
Integrating big data and actionable health coaching to optimize wellness
-
Hood L, Lovejoy JC, Price ND. Integrating big data and actionable health coaching to optimize wellness. BMC Med 2015;13:4.
-
(2015)
BMC Med
, vol.13
, pp. 4
-
-
Hood, L.1
Lovejoy, J.C.2
Price, N.D.3
-
73
-
-
84901387868
-
Deciphering early development of complex diseases by progressive module network
-
Zeng T, Zhang CC, Zhang W, et al. Deciphering early development of complex diseases by progressive module network. Methods 2014;67:334-43.
-
(2014)
Methods
, vol.67
, pp. 334-343
-
-
Zeng, T.1
Zhang, C.C.2
Zhang, W.3
-
74
-
-
84910070867
-
Systematic identification of transcriptional and post-transcriptional regulations in human respiratory epithelial cells during influenza A virus infection
-
Liu ZP, Wu H, Zhu J, et al. Systematic identification of transcriptional and post-transcriptional regulations in human respiratory epithelial cells during influenza A virus infection. BMC Bioinformatics 2014;15:336.
-
(2014)
BMC Bioinformatics
, vol.15
, pp. 336
-
-
Liu, Z.P.1
Wu, H.2
Zhu, J.3
-
75
-
-
84863887694
-
Studying and modelling dynamic biological processes using time-series gene expression data
-
Bar-Joseph Z, Gitter A, Simon I. Studying and modelling dynamic biological processes using time-series gene expression data. Nat Rev Genet 2012;13:552-64.
-
(2012)
Nat Rev Genet
, vol.13
, pp. 552-564
-
-
Bar-Joseph, Z.1
Gitter, A.2
Simon, I.3
-
76
-
-
84873124804
-
APG: an Active Protein-Gene network model to quantify regulatory signals in complex biological systems
-
Wang J, Sun Y, Zheng S, et al. APG: an Active Protein-Gene network model to quantify regulatory signals in complex biological systems. Sci Rep 2013;3:1097.
-
(2013)
Sci Rep
, vol.3
, pp. 1097
-
-
Wang, J.1
Sun, Y.2
Zheng, S.3
-
77
-
-
80052320333
-
Temporal dynamics of host molecular responses differentiate symptomatic and asymptomatic influenza a infection
-
Huang Y, Zaas AK, Rao A, et al. Temporal dynamics of host molecular responses differentiate symptomatic and asymptomatic influenza a infection. PLoS Genet 2011;7:e1002234.
-
(2011)
PLoS Genet
, vol.7
-
-
Huang, Y.1
Zaas, A.K.2
Rao, A.3
-
78
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
van 't Veer LJ, Dai H, van de Vijver MJ, et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature 2002;415:530-6.
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
van 't Veer, L.J.1
Dai, H.2
van de Vijver, M.J.3
-
79
-
-
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
-
80
-
-
35348891430
-
Network-based classification of breast cancer metastasis
-
Chuang HY, Lee E, Liu YT, et al. Network-based classification of breast cancer metastasis. Mol Syst Biol 2007;3:140.
-
(2007)
Mol Syst Biol
, vol.3
, pp. 140
-
-
Chuang, H.Y.1
Lee, E.2
Liu, Y.T.3
-
81
-
-
57149092133
-
Inferring pathway activity toward precise disease classification
-
Lee E, Chuang HY, Kim JW, et al. Inferring pathway activity toward precise disease classification. PLoS Comput Biol 2008;4:e1000217.
-
(2008)
PLoS Comput Biol
, vol.4
-
-
Lee, E.1
Chuang, H.Y.2
Kim, J.W.3
-
82
-
-
84874903469
-
Classification of time series gene expression in clinical studies via integration of biological network
-
Qian L, Zheng H, Zhou H, et al. Classification of time series gene expression in clinical studies via integration of biological network. PLoS One 2013;8:e58383.
-
(2013)
PLoS One
, vol.8
-
-
Qian, L.1
Zheng, H.2
Zhou, H.3
-
83
-
-
84925452476
-
Deciphering deterioration mechanisms of complex diseases based on the construction of dynamic networks and systems analysis
-
Li Y, Jin S, Lei L, et al. Deciphering deterioration mechanisms of complex diseases based on the construction of dynamic networks and systems analysis. Sci Rep 2015;5:9283.
-
(2015)
Sci Rep
, vol.5
, pp. 9283
-
-
Li, Y.1
Jin, S.2
Lei, L.3
-
84
-
-
84868152524
-
Discovery of multi-dimensional modules by integrative analysis of cancer genomic data
-
Zhang S, Liu CC, Li W, et al. Discovery of multi-dimensional modules by integrative analysis of cancer genomic data. Nucleic Acids Res 2012;40:9379-91.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 9379-9391
-
-
Zhang, S.1
Liu, C.C.2
Li, W.3
-
85
-
-
84889594211
-
Temporal response of the human virome to immunosuppression and antiviral therapy
-
De Vlaminck I, Khush KK, Strehl C, et al. Temporal response of the human virome to immunosuppression and antiviral therapy. Cell 2013;155:1178-87.
-
(2013)
Cell
, vol.155
, pp. 1178-1187
-
-
De Vlaminck, I.1
Khush, K.K.2
Strehl, C.3
-
86
-
-
35748932917
-
A review of feature selection techniques in bioinformatics
-
Saeys Y, Inza I, Larranaga P. A review of feature selection techniques in bioinformatics. Bioinformatics 2007; 23:2507-17.
-
(2007)
Bioinformatics
, vol.23
, pp. 2507-2517
-
-
Saeys, Y.1
Inza, I.2
Larranaga, P.3
-
88
-
-
84923375991
-
Drug-induced death signaling strategy rapidly predicts cancer response to chemotherapy
-
Montero J, Sarosiek KA, DeAngelo JD, et al. Drug-induced death signaling strategy rapidly predicts cancer response to chemotherapy. Cell 2015;160:977-89.
-
(2015)
Cell
, vol.160
, pp. 977-989
-
-
Montero, J.1
Sarosiek, K.A.2
DeAngelo, J.D.3
-
89
-
-
84890285744
-
SHON is a novel estrogen-regulated oncogene in mammary carcinoma that predicts patient response to endocrine therapy
-
Jung Y, Abdel-Fatah TM, Chan SY, et al. SHON is a novel estrogen-regulated oncogene in mammary carcinoma that predicts patient response to endocrine therapy. Cancer Res 2013;73:6951-62.
-
(2013)
Cancer Res
, vol.73
, pp. 6951-6962
-
-
Jung, Y.1
Abdel-Fatah, T.M.2
Chan, S.Y.3
-
90
-
-
84875439460
-
Collections of simultaneously altered genes as biomarkers of cancer cell drug response
-
Masica DL, Karchin R. Collections of simultaneously altered genes as biomarkers of cancer cell drug response. Cancer Res 2013;73:1699-708.
-
(2013)
Cancer Res
, vol.73
, pp. 1699-1708
-
-
Masica, D.L.1
Karchin, R.2
-
91
-
-
84891945257
-
Differential network analysis applied to preoperative breast cancer chemotherapy response
-
Warsow G, Struckmann S, Kerkhoff C, et al. Differential network analysis applied to preoperative breast cancer chemotherapy response. PLoS One 2013;8:e81784.
-
(2013)
PLoS One
, vol.8
-
-
Warsow, G.1
Struckmann, S.2
Kerkhoff, C.3
-
92
-
-
84896802719
-
Predicting cooperative drug effects through the quantitative cellular profiling of response to individual drugs
-
Zhao J, Zhang XS, Zhang S. Predicting cooperative drug effects through the quantitative cellular profiling of response to individual drugs. CPT Pharmacometrics Syst Pharmacol 2014;3:e102.
-
(2014)
CPT Pharmacometrics Syst Pharmacol
, vol.3
-
-
Zhao, J.1
Zhang, X.S.2
Zhang, S.3
-
93
-
-
84888049920
-
Commensal bacteria control cancer response to therapy by modulating the tumor microenvironment
-
Iida N, Dzutsev A, Stewart CA, et al. Commensal bacteria control cancer response to therapy by modulating the tumor microenvironment. Science 2013;342:967-70.
-
(2013)
Science
, vol.342
, pp. 967-970
-
-
Iida, N.1
Dzutsev, A.2
Stewart, C.A.3
-
94
-
-
84907494553
-
Quantitative optical imaging of primary tumor organoid metabolism predicts drug response in breast cancer
-
Walsh AJ, Cook RS, Sanders ME, et al. Quantitative optical imaging of primary tumor organoid metabolism predicts drug response in breast cancer. Cancer Res 2014;74: 5184-94.
-
(2014)
Cancer Res
, vol.74
, pp. 5184-5194
-
-
Walsh, A.J.1
Cook, R.S.2
Sanders, M.E.3
-
95
-
-
84897951842
-
Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines
-
Geeleher P, Cox NJ, Huang RS. Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines. Genome Biol 2014;15:R47.
-
(2014)
Genome Biol
, vol.15
, pp. R47
-
-
Geeleher, P.1
Cox, N.J.2
Huang, R.S.3
-
96
-
-
84937761544
-
Studying clonal dynamics in response to cancer therapy using high-complexity barcoding
-
Bhang HE, Ruddy DA, Krishnamurthy Radhakrishna V, et al. Studying clonal dynamics in response to cancer therapy using high-complexity barcoding. Nat Med 2015;21:440-8.
-
(2015)
Nat Med
, vol.21
, pp. 440-448
-
-
Bhang, H.E.1
Ruddy, D.A.2
Krishnamurthy Radhakrishna, V.3
-
97
-
-
84893165119
-
Discovery of genetic biomarkers contributing to variation in drug response of cytidine analogues using human lymphoblastoid cell lines
-
Li L, Fridley BL, Kalari K, et al. Discovery of genetic biomarkers contributing to variation in drug response of cytidine analogues using human lymphoblastoid cell lines. BMC Genomics 2014;15:93.
-
(2014)
BMC Genomics
, vol.15
, pp. 93
-
-
Li, L.1
Fridley, B.L.2
Kalari, K.3
-
98
-
-
84892604542
-
Variant GADL1 and response to lithium therapy in bipolar I disorder
-
Chen CH, Lee CS, Lee MT, et al. Variant GADL1 and response to lithium therapy in bipolar I disorder. N Engl J Med 2014;370:119-28.
-
(2014)
N Engl J Med
, vol.370
, pp. 119-128
-
-
Chen, C.H.1
Lee, C.S.2
Lee, M.T.3
-
99
-
-
84875993860
-
Genome-wide association study and gene expression analysis identifies CD84 as a predictor of response to etanercept therapy in rheumatoid arthritis
-
Cui J, Stahl EA, Saevarsdottir S, et al. Genome-wide association study and gene expression analysis identifies CD84 as a predictor of response to etanercept therapy in rheumatoid arthritis. PLoS Genet 2013;9:e1003394.
-
(2013)
PLoS Genet
, vol.9
-
-
Cui, J.1
Stahl, E.A.2
Saevarsdottir, S.3
-
100
-
-
0026777128
-
HCV genotypes in chronic hepatitis C and response to interferon
-
Kanai K, Kako M, Okamoto H. HCV genotypes in chronic hepatitis C and response to interferon. Lancet 1992;339:1543.
-
(1992)
Lancet
, vol.339
, pp. 1543
-
-
Kanai, K.1
Kako, M.2
Okamoto, H.3
-
101
-
-
0027163103
-
Nucleotide sequence of the hepatitis C virus genome from a patient negative for anti-HCV by the first generation antibody assay
-
Sarashina T, Sakurai T, Watanabe Y, et al. Nucleotide sequence of the hepatitis C virus genome from a patient negative for anti-HCV by the first generation antibody assay. Nucleic Acids Res 1993;21:1037.
-
(1993)
Nucleic Acids Res
, vol.21
, pp. 1037
-
-
Sarashina, T.1
Sakurai, T.2
Watanabe, Y.3
-
102
-
-
0033052847
-
Relationship of the genomic complexity of hepatitis C virus with liver disease severity and response to interferon in patients with chronic HCV genotype 1b infection [correction of interferon]
-
Lopez-Labrador FX, Ampurdanes S, Gimenez-Barcons M, et al. Relationship of the genomic complexity of hepatitis C virus with liver disease severity and response to interferon in patients with chronic HCV genotype 1b infection [correction of interferon]. Hepatology 1999;29:897-903.
-
(1999)
Hepatology
, vol.29
, pp. 897-903
-
-
Lopez-Labrador, F.X.1
Ampurdanes, S.2
Gimenez-Barcons, M.3
-
103
-
-
84885952071
-
Impact of host and virus genome variability on HCV replication and response to interferon
-
Schweitzer CJ, Liang TJ. Impact of host and virus genome variability on HCV replication and response to interferon. Curr Opin Virol 2013;3:501-7.
-
(2013)
Curr Opin Virol
, vol.3
, pp. 501-507
-
-
Schweitzer, C.J.1
Liang, T.J.2
-
104
-
-
27944450456
-
DNA microarray data imputation and significance analysis of differential expression
-
Jornsten R, Wang HY, Welsh WJ, et al. DNA microarray data imputation and significance analysis of differential expression. Bioinformatics 2005;21:4155-61.
-
(2005)
Bioinformatics
, vol.21
, pp. 4155-4161
-
-
Jornsten, R.1
Wang, H.Y.2
Welsh, W.J.3
-
105
-
-
84883644707
-
Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
-
Rapaport F, Khanin R, Liang Y, et al. Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data. Genome Biol 2013;14:R95.
-
(2013)
Genome Biol
, vol.14
, pp. R95
-
-
Rapaport, F.1
Khanin, R.2
Liang, Y.3
-
106
-
-
84862630197
-
Data integration and systems biology approaches for biomarker discovery: challenges and opportunities for multiple sclerosis
-
Villoslada P, Baranzini S. Data integration and systems biology approaches for biomarker discovery: challenges and opportunities for multiple sclerosis. J Neuroimmunol 2012;248:58-65.
-
(2012)
J Neuroimmunol
, vol.248
, pp. 58-65
-
-
Villoslada, P.1
Baranzini, S.2
-
107
-
-
65549084289
-
Pathway and network-based analysis of genome-wide association studies in multiple sclerosis
-
Baranzini SE, Galwey NW, Wang J, et al. Pathway and network-based analysis of genome-wide association studies in multiple sclerosis. Hum Mol Genet 2009;18:2078-90.
-
(2009)
Hum Mol Genet
, vol.18
, pp. 2078-2090
-
-
Baranzini, S.E.1
Galwey, N.W.2
Wang, J.3
-
108
-
-
84897903348
-
Prediction and early diagnosis of complex diseases by edge-network
-
Yu X, Li G, Chen L. Prediction and early diagnosis of complex diseases by edge-network. Bioinformatics 2014;30:852-9.
-
(2014)
Bioinformatics
, vol.30
, pp. 852-859
-
-
Yu, X.1
Li, G.2
Chen, L.3
-
109
-
-
84901315597
-
Identifying critical transitions of complex diseases based on a single sample
-
Liu R, Yu X, Liu X, et al. Identifying critical transitions of complex diseases based on a single sample. Bioinformatics 2014;30:1579-86.
-
(2014)
Bioinformatics
, vol.30
, pp. 1579-1586
-
-
Liu, R.1
Yu, X.2
Liu, X.3
-
110
-
-
58149377592
-
Cyclic changes in gene expression induced by Peg-interferon alfa-2b plus ribavirin in peripheral blood monocytes (PBMC) of hepatitis C patients during the first 10 weeks of treatment
-
Taylor MW, Tsukahara T, McClintick JN, et al. Cyclic changes in gene expression induced by Peg-interferon alfa-2b plus ribavirin in peripheral blood monocytes (PBMC) of hepatitis C patients during the first 10 weeks of treatment. J Transl Med 2008;6:66.
-
(2008)
J Transl Med
, vol.6
, pp. 66
-
-
Taylor, M.W.1
Tsukahara, T.2
McClintick, J.N.3
-
111
-
-
52749089141
-
The prediction of interferon treatment effects based on time series microarray gene expression profiles
-
Huang T, Tu K, Shyr Y, et al. The prediction of interferon treatment effects based on time series microarray gene expression profiles. J Transl Med 2008;6:44.
-
(2008)
J Transl Med
, vol.6
, pp. 44
-
-
Huang, T.1
Tu, K.2
Shyr, Y.3
-
112
-
-
20044373640
-
Transcription-based prediction of response to IFNbeta using supervised computational methods
-
Baranzini SE, Mousavi P, Rio J, et al. Transcription-based prediction of response to IFNbeta using supervised computational methods. PLoS Biol 2005;3:e2.
-
(2005)
PLoS Biol
, vol.3
-
-
Baranzini, S.E.1
Mousavi, P.2
Rio, J.3
-
113
-
-
84903705946
-
Negative correlation based gene markers identification in integrative gene expression data
-
Zeng T, Guo X, Liu J. Negative correlation based gene markers identification in integrative gene expression data. Int J Data Min Bioinform 2014;10:1-17.
-
(2014)
Int J Data Min Bioinform
, vol.10
, pp. 1-17
-
-
Zeng, T.1
Guo, X.2
Liu, J.3
-
114
-
-
46249094886
-
Alignment and classification of time series gene expression in clinical studies
-
Lin TH, Kaminski N, Bar-Joseph Z. Alignment and classification of time series gene expression in clinical studies. Bioinformatics 2008;24:i147-55.
-
(2008)
Bioinformatics
, vol.24
, pp. i147-i155
-
-
Lin, T.H.1
Kaminski, N.2
Bar-Joseph, Z.3
-
115
-
-
75749118260
-
Expression of genes associated with immunoproteasome processing of major histocompatibility complex peptides is indicative of protection with adjuvanted RTS, S malaria vaccine
-
Vahey MT, Wang Z, Kester KE, et al. Expression of genes associated with immunoproteasome processing of major histocompatibility complex peptides is indicative of protection with adjuvanted RTS, S malaria vaccine. J Infect Dis 2010;201:580-9.
-
(2010)
J Infect Dis
, vol.201
, pp. 580-589
-
-
Vahey, M.T.1
Wang, Z.2
Kester, K.E.3
-
116
-
-
0030917736
-
From malaria to chemokine receptor: the emerging physiologic role of the Duffy blood group antigen
-
Hadley TJ, Peiper SC. From malaria to chemokine receptor: the emerging physiologic role of the Duffy blood group antigen. Blood 1997;89:3077-91.
-
(1997)
Blood
, vol.89
, pp. 3077-3091
-
-
Hadley, T.J.1
Peiper, S.C.2
-
117
-
-
84906658091
-
Unleashing the potential of NOD-and Toll-like agonists as vaccine adjuvants
-
Maisonneuve C, Bertholet S, Philpott DJ, et al. Unleashing the potential of NOD-and Toll-like agonists as vaccine adjuvants. Proc Natl Acad Sci USA 2014;111:12294-9.
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, pp. 12294-12299
-
-
Maisonneuve, C.1
Bertholet, S.2
Philpott, D.J.3
-
118
-
-
7044254906
-
Phase I testing of a malaria vaccine composed of hepatitis B virus core particles expressing Plasmodium falciparum circumsporozoite epitopes
-
Nardin EH, Oliveira GA, Calvo-Calle JM, et al. Phase I testing of a malaria vaccine composed of hepatitis B virus core particles expressing Plasmodium falciparum circumsporozoite epitopes. Infect Immun 2004;72:6519-27.
-
(2004)
Infect Immun
, vol.72
, pp. 6519-6527
-
-
Nardin, E.H.1
Oliveira, G.A.2
Calvo-Calle, J.M.3
-
119
-
-
0036986329
-
A malaria vaccine candidate based on a hepatitis B virus core platform
-
Sallberg M, Hughes J, Jones J, et al. A malaria vaccine candidate based on a hepatitis B virus core platform. Intervirology 2002;45:350-61.
-
(2002)
Intervirology
, vol.45
, pp. 350-361
-
-
Sallberg, M.1
Hughes, J.2
Jones, J.3
-
121
-
-
77953792335
-
Association between malaria incidence and all cancer mortality in fifty U.S.States and the District of Columbia
-
Lehrer S. Association between malaria incidence and all cancer mortality in fifty U.S. States and the District of Columbia. Anticancer Res 2010;30:1371-3.
-
(2010)
Anticancer Res
, vol.30
, pp. 1371-1373
-
-
Lehrer, S.1
-
122
-
-
25444456388
-
Towards precise classification of cancers based on robust gene functional expression profiles
-
Guo Z, Zhang T, Li X, et al. Towards precise classification of cancers based on robust gene functional expression profiles. BMC Bioinformatics 2005;6:58.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 58
-
-
Guo, Z.1
Zhang, T.2
Li, X.3
-
123
-
-
84899541058
-
netClass: an R-package for network based, integrative biomarker signature discovery
-
Cun Y, Frohlich H. netClass: an R-package for network based, integrative biomarker signature discovery. Bioinformatics 2014;30:1325-6.
-
(2014)
Bioinformatics
, vol.30
, pp. 1325-1326
-
-
Cun, Y.1
Frohlich, H.2
-
124
-
-
84863677563
-
Google goes cancer: improving outcome prediction for cancer patients by network-based ranking of marker genes
-
Winter C, Kristiansen G, Kersting S, et al. Google goes cancer: improving outcome prediction for cancer patients by network-based ranking of marker genes. PLoS Comput Biol 2012;8:e1002511.
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Winter, C.1
Kristiansen, G.2
Kersting, S.3
-
125
-
-
84872202078
-
GSVA: gene set variation analysis for microarray and RNA-seq data
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Hanzelmann S, Castelo R, Guinney J. GSVA: gene set variation analysis for microarray and RNA-seq data. BMC Bioinformatics 2013;14:7.
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(2013)
BMC Bioinformatics
, vol.14
, pp. 7
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Hanzelmann, S.1
Castelo, R.2
Guinney, J.3
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