-
1
-
-
65949124249
-
Genomewide association studies - illuminating biologic pathways
-
Hirschhorn J.N. Genomewide association studies - illuminating biologic pathways. N. Engl. J. Med. 2009, 360:1699-1701.
-
(2009)
N. Engl. J. Med.
, vol.360
, pp. 1699-1701
-
-
Hirschhorn, J.N.1
-
2
-
-
77958486255
-
Statistical methods for pathway analysis of genome-wide data for association with complex genetic traits
-
Holmans P. Statistical methods for pathway analysis of genome-wide data for association with complex genetic traits. Adv. Genet. 2010, 72:141-179.
-
(2010)
Adv. Genet.
, vol.72
, pp. 141-179
-
-
Holmans, P.1
-
3
-
-
78549251736
-
Analysing biological pathways in genome-wide association studies
-
Wang K., et al. Analysing biological pathways in genome-wide association studies. Nat. Rev. Genet. 2010, 11:843-854.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 843-854
-
-
Wang, K.1
-
4
-
-
84862499271
-
Pathway analysis of genomic data: concepts, methods, and prospects for future development
-
Ramanan V.K., et al. Pathway analysis of genomic data: concepts, methods, and prospects for future development. Trends Genet. 2012, 28:323-332.
-
(2012)
Trends Genet.
, vol.28
, pp. 323-332
-
-
Ramanan, V.K.1
-
5
-
-
79960644911
-
Gene set analysis of SNP data: benefits, challenges, and future directions
-
Fridley B.L., Biernacka J.M. Gene set analysis of SNP data: benefits, challenges, and future directions. Eur. J. Hum. Genet. 2011, 19:837-843.
-
(2011)
Eur. J. Hum. Genet.
, vol.19
, pp. 837-843
-
-
Fridley, B.L.1
Biernacka, J.M.2
-
6
-
-
78651332286
-
Pathway Commons, a web resource for biological pathway data
-
Cerami E.G., et al. Pathway Commons, a web resource for biological pathway data. Nucleic Acids Res. 2011, 39:D685-D690.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Cerami, E.G.1
-
7
-
-
0033982936
-
KEGG: Kyoto encyclopedia of genes and genomes
-
Kanehisa M., Goto S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000, 28:27-30.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
8
-
-
84891760956
-
Data, information, knowledge and principle: back to metabolism in KEGG
-
Kanehisa M., et al. Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res. 2014, 42:D199-D205.
-
(2014)
Nucleic Acids Res.
, vol.42
-
-
Kanehisa, M.1
-
9
-
-
84891753483
-
The Reactome pathway knowledgebase
-
Croft D., et al. The Reactome pathway knowledgebase. Nucleic Acids Res. 2014, 42:D472-D477.
-
(2014)
Nucleic Acids Res.
, vol.42
-
-
Croft, D.1
-
10
-
-
0034069495
-
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M., et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 2000, 25:25-29.
-
(2000)
Nat. Genet.
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
-
11
-
-
27344435774
-
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A., et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. U.S.A. 2005, 102:15545-15550.
-
(2005)
Proc. Natl. Acad. Sci. U.S.A.
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
-
12
-
-
58149186477
-
PID: the Pathway Interaction Database
-
Schaefer C.F., et al. PID: the Pathway Interaction Database. Nucleic Acids Res. 2009, 37:D674-D679.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Schaefer, C.F.1
-
13
-
-
78651335912
-
ConsensusPathDB: toward a more complete picture of cell biology
-
Kamburov A., et al. ConsensusPathDB: toward a more complete picture of cell biology. Nucleic Acids Res. 2011, 39:D712-D717.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Kamburov, A.1
-
14
-
-
84861123691
-
Ten years of pathway analysis: current approaches and outstanding challenges
-
Khatri P., et al. Ten years of pathway analysis: current approaches and outstanding challenges. PLoS Comput. Biol. 2012, 8:e1002375.
-
(2012)
PLoS Comput. Biol.
, vol.8
-
-
Khatri, P.1
-
15
-
-
0015801657
-
A genetic method for determining the order of events in a biological pathway
-
Jarvik J., Botstein D. A genetic method for determining the order of events in a biological pathway. Proc. Natl. Acad. Sci. U.S.A. 1973, 70:2046-2050.
-
(1973)
Proc. Natl. Acad. Sci. U.S.A.
, vol.70
, pp. 2046-2050
-
-
Jarvik, J.1
Botstein, D.2
-
16
-
-
84893009656
-
Methods and approaches in the topology-based analysis of biological pathways
-
Mitrea C., et al. Methods and approaches in the topology-based analysis of biological pathways. Front. Physiol. 2013, 4:278.
-
(2013)
Front. Physiol.
, vol.4
, pp. 278
-
-
Mitrea, C.1
-
17
-
-
77956664073
-
The BioPAX community standard for pathway data sharing
-
Demir E., et al. The BioPAX community standard for pathway data sharing. Nat. Biotechnol. 2010, 28:935-942.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 935-942
-
-
Demir, E.1
-
18
-
-
84887422588
-
Analysis and correction of crosstalk effects in pathway analysis
-
Donato M., et al. Analysis and correction of crosstalk effects in pathway analysis. Genome Res. 2013, 23:1885-1893.
-
(2013)
Genome Res.
, vol.23
, pp. 1885-1893
-
-
Donato, M.1
-
19
-
-
0037245913
-
BIND: the Biomolecular Interaction Network Database
-
Bader G.D., et al. BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res. 2003, 31:248-250.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 248-250
-
-
Bader, G.D.1
-
20
-
-
0347755535
-
The Database of Interacting Proteins: 2004 update
-
Salwinski L., et al. The Database of Interacting Proteins: 2004 update. Nucleic Acids Res. 2004, 32:D449-D451.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Salwinski, L.1
-
21
-
-
84859204939
-
The IntAct molecular interaction database in 2012
-
Kerrien S., et al. The IntAct molecular interaction database in 2012. Nucleic Acids Res. 2012, 40:D841-D846.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Kerrien, S.1
-
22
-
-
84860918589
-
MINT, the molecular interaction database: 2012 update
-
Licata L., et al. MINT, the molecular interaction database: 2012 update. Nucleic Acids Res. 2012, 40:D857-D861.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Licata, L.1
-
23
-
-
58149193222
-
Human Protein Reference Database - 2009 update
-
Keshava Prasad T.S., et al. Human Protein Reference Database - 2009 update. Nucleic Acids Res. 2009, 37:D767-D772.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Keshava Prasad, T.S.1
-
24
-
-
58149193234
-
STRING 8 - a global view on proteins and their functional interactions in 630 organisms
-
Jensen L.J., et al. STRING 8 - a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 2009, 37:D412-D416.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Jensen, L.J.1
-
25
-
-
84876515907
-
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
-
Franceschini A., et al. STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res. 2013, 41:D808-D815.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Franceschini, A.1
-
26
-
-
34249107988
-
The minimum information required for reporting a molecular interaction experiment (MIMIx)
-
Orchard S., et al. The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat. Biotechnol. 2007, 25:894-898.
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 894-898
-
-
Orchard, S.1
-
27
-
-
79955135758
-
Integrated genome-wide association study findings: identification of a neurodevelopmental network for attention deficit hyperactivity disorder
-
Poelmans G., et al. Integrated genome-wide association study findings: identification of a neurodevelopmental network for attention deficit hyperactivity disorder. Am. J. Psychiatry 2011, 168:365-377.
-
(2011)
Am. J. Psychiatry
, vol.168
, pp. 365-377
-
-
Poelmans, G.1
-
28
-
-
78149345307
-
Module detection in complex networks using integer optimisation
-
Xu G., et al. Module detection in complex networks using integer optimisation. Algorithms Mol. Biol. 2010, 5:36.
-
(2010)
Algorithms Mol. Biol.
, vol.5
, pp. 36
-
-
Xu, G.1
-
29
-
-
84862160806
-
PINA v2.0: mining interactome modules
-
Cowley M.J., et al. PINA v2.0: mining interactome modules. Nucleic Acids Res. 2012, 40:D862-D865.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Cowley, M.J.1
-
30
-
-
80055031911
-
A new methodology to associate SNPs with human diseases according to their pathway related context
-
Bakir-Gungor B., Sezerman O.U. A new methodology to associate SNPs with human diseases according to their pathway related context. PLoS ONE 2011, 6:e26277.
-
(2011)
PLoS ONE
, vol.6
-
-
Bakir-Gungor, B.1
Sezerman, O.U.2
-
31
-
-
78650562728
-
DmGWAS: dense module searching for genome-wide association studies in protein-protein interaction networks
-
Jia P., et al. dmGWAS: dense module searching for genome-wide association studies in protein-protein interaction networks. Bioinformatics 2011, 27:95-102.
-
(2011)
Bioinformatics
, vol.27
, pp. 95-102
-
-
Jia, P.1
-
32
-
-
79952389826
-
Algorithms for detecting significantly mutated pathways in cancer
-
Vandin F., et al. Algorithms for detecting significantly mutated pathways in cancer. J. Comput. Biol. 2011, 18:507-522.
-
(2011)
J. Comput. Biol.
, vol.18
, pp. 507-522
-
-
Vandin, F.1
-
33
-
-
84899477872
-
Organization to promote biomarker development
-
National Biomarker Development Alliance
-
National Biomarker Development Alliance Organization to promote biomarker development. J. Nucl. Med. 2014, 55:11N.
-
(2014)
J. Nucl. Med.
, vol.55
-
-
-
34
-
-
84860331458
-
Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture
-
Estrada K., et al. Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture. Nat. Genet. 2012, 44:491-501.
-
(2012)
Nat. Genet.
, vol.44
, pp. 491-501
-
-
Estrada, K.1
-
35
-
-
84866911829
-
Camera: a competitive gene set test accounting for inter-gene correlation
-
Wu D., Smyth G.K. Camera: a competitive gene set test accounting for inter-gene correlation. Nucleic Acids Res. 2012, 40:e133.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Wu, D.1
Smyth, G.K.2
-
36
-
-
77949853541
-
Gene, region and pathway level analyses in whole-genome studies
-
De la Cruz O., et al. Gene, region and pathway level analyses in whole-genome studies. Genet. Epidemiol. 2010, 34:222-231.
-
(2010)
Genet. Epidemiol.
, vol.34
, pp. 222-231
-
-
De la Cruz, O.1
-
37
-
-
77955981355
-
Genome-wide gene and pathway analysis
-
Luo L., et al. Genome-wide gene and pathway analysis. Eur. J. Hum. Genet. 2010, 18:1045-1053.
-
(2010)
Eur. J. Hum. Genet.
, vol.18
, pp. 1045-1053
-
-
Luo, L.1
-
38
-
-
84859909127
-
Use of the gamma method for self-contained gene-set analysis of SNP data
-
Biernacka J.M., et al. Use of the gamma method for self-contained gene-set analysis of SNP data. Eur. J. Hum. Genet. 2012, 20:565-571.
-
(2012)
Eur. J. Hum. Genet.
, vol.20
, pp. 565-571
-
-
Biernacka, J.M.1
-
39
-
-
67651053605
-
Pathway analysis by adaptive combination of P-values
-
Yu K., et al. Pathway analysis by adaptive combination of P-values. Genet. Epidemiol. 2009, 33:700-709.
-
(2009)
Genet. Epidemiol.
, vol.33
, pp. 700-709
-
-
Yu, K.1
-
40
-
-
77955064853
-
A versatile gene-based test for genome-wide association studies
-
Liu J.Z., et al. A versatile gene-based test for genome-wide association studies. Am. J. Hum. Genet. 2010, 87:139-145.
-
(2010)
Am. J. Hum. Genet.
, vol.87
, pp. 139-145
-
-
Liu, J.Z.1
-
41
-
-
84859732048
-
A pathway analysis method for genome-wide association studies
-
Shahbaba B., et al. A pathway analysis method for genome-wide association studies. Stat. Med. 2012, 31:988-1000.
-
(2012)
Stat. Med.
, vol.31
, pp. 988-1000
-
-
Shahbaba, B.1
-
42
-
-
77953123145
-
Insights into colon cancer etiology via a regularized approach to gene set analysis of GWAS data
-
Chen L.S., et al. Insights into colon cancer etiology via a regularized approach to gene set analysis of GWAS data. Am. J. Hum. Genet. 2010, 86:860-871.
-
(2010)
Am. J. Hum. Genet.
, vol.86
, pp. 860-871
-
-
Chen, L.S.1
-
43
-
-
77958611364
-
Pathway-based analysis for genome-wide association studies using supervised principal components
-
Chen X., et al. Pathway-based analysis for genome-wide association studies using supervised principal components. Genet. Epidemiol. 2010, 34:716-724.
-
(2010)
Genet. Epidemiol.
, vol.34
, pp. 716-724
-
-
Chen, X.1
-
44
-
-
84897713870
-
Two novel pathway analysis methods based on a hierarchical model
-
Evangelou M., et al. Two novel pathway analysis methods based on a hierarchical model. Bioinformatics 2014, 30:690-697.
-
(2014)
Bioinformatics
, vol.30
, pp. 690-697
-
-
Evangelou, M.1
-
45
-
-
79951966907
-
An efficient hierarchical generalized linear mixed model for pathway analysis of genome-wide association studies
-
Wang L., et al. An efficient hierarchical generalized linear mixed model for pathway analysis of genome-wide association studies. Bioinformatics 2011, 27:686-692.
-
(2011)
Bioinformatics
, vol.27
, pp. 686-692
-
-
Wang, L.1
-
46
-
-
84887281556
-
Integrated enrichment analysis of variants and pathways in genome-wide association studies indicates central role for IL-2 signaling genes in type 1 diabetes, and cytokine signaling genes in Crohn's disease
-
Carbonetto P., Stephens M. Integrated enrichment analysis of variants and pathways in genome-wide association studies indicates central role for IL-2 signaling genes in type 1 diabetes, and cytokine signaling genes in Crohn's disease. PLoS Genet. 2013, 9:e1003770.
-
(2013)
PLoS Genet.
, vol.9
-
-
Carbonetto, P.1
Stephens, M.2
-
47
-
-
84895930198
-
A system-level pathway-phenotype association analysis using synthetic feature random forest
-
Pan Q., et al. A system-level pathway-phenotype association analysis using synthetic feature random forest. Genet. Epidemiol. 2014, 38:209-219.
-
(2014)
Genet. Epidemiol.
, vol.38
, pp. 209-219
-
-
Pan, Q.1
-
48
-
-
84888215306
-
Pathways-driven sparse regression identifies pathways and genes associated with high-density lipoprotein cholesterol in two Asian cohorts
-
Silver M., et al. Pathways-driven sparse regression identifies pathways and genes associated with high-density lipoprotein cholesterol in two Asian cohorts. PLoS Genet. 2013, 9:e1003939.
-
(2013)
PLoS Genet.
, vol.9
-
-
Silver, M.1
-
49
-
-
84891533416
-
Tissue specificity in the nuclear envelope supports its functional complexity
-
de Las Heras J.I., et al. Tissue specificity in the nuclear envelope supports its functional complexity. Nucleus 2013, 4:460-477.
-
(2013)
Nucleus
, vol.4
, pp. 460-477
-
-
de Las Heras, J.I.1
-
50
-
-
79960245388
-
Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the GRB2 adaptor
-
Bisson N., et al. Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the GRB2 adaptor. Nat. Biotechnol. 2011, 29:653-658.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 653-658
-
-
Bisson, N.1
-
51
-
-
84904850503
-
Assembling cell context-specific gene sets: a case in cardiomyopathy
-
Liu M., et al. Assembling cell context-specific gene sets: a case in cardiomyopathy. J. Integr. Bioinform. 2013, 10:234.
-
(2013)
J. Integr. Bioinform.
, vol.10
, pp. 234
-
-
Liu, M.1
-
52
-
-
84879955888
-
A context-sensitive framework for the analysis of human signalling pathways in molecular interaction networks
-
Lan A., et al. A context-sensitive framework for the analysis of human signalling pathways in molecular interaction networks. Bioinformatics 2013, 29:i210-i216.
-
(2013)
Bioinformatics
, vol.29
-
-
Lan, A.1
-
53
-
-
84876847154
-
All SNPs are not created equal: genome-wide association studies reveal a consistent pattern of enrichment among functionally annotated SNPs
-
Schork A.J., et al. All SNPs are not created equal: genome-wide association studies reveal a consistent pattern of enrichment among functionally annotated SNPs. PLoS Genet. 2013, 9:e1003449.
-
(2013)
PLoS Genet.
, vol.9
-
-
Schork, A.J.1
-
54
-
-
79955554174
-
Genetic analysis of biological pathway data through genomic randomization
-
Yaspan B.L., et al. Genetic analysis of biological pathway data through genomic randomization. Hum. Genet. 2011, 129:563-571.
-
(2011)
Hum. Genet.
, vol.129
, pp. 563-571
-
-
Yaspan, B.L.1
-
55
-
-
77954283427
-
SPOT: a web-based tool for using biological databases to prioritize SNPs after a genome-wide association study
-
Saccone S.F., et al. SPOT: a web-based tool for using biological databases to prioritize SNPs after a genome-wide association study. Nucleic Acids Res. 2010, 38:W201-W209.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Saccone, S.F.1
-
56
-
-
68949204302
-
Strategies and issues in the detection of pathway enrichment in genome-wide association studies
-
Hong M.G., et al. Strategies and issues in the detection of pathway enrichment in genome-wide association studies. Hum. Genet. 2009, 126:289-301.
-
(2009)
Hum. Genet.
, vol.126
, pp. 289-301
-
-
Hong, M.G.1
-
57
-
-
67649584052
-
Gene ontology analysis of GWA study data sets provides insights into the biology of bipolar disorder
-
Holmans P., et al. Gene ontology analysis of GWA study data sets provides insights into the biology of bipolar disorder. Am. J. Hum. Genet. 2009, 85:13-24.
-
(2009)
Am. J. Hum. Genet.
, vol.85
, pp. 13-24
-
-
Holmans, P.1
-
58
-
-
84862781043
-
A bias-reducing pathway enrichment analysis of genome-wide association data confirmed association of the MHC region with schizophrenia
-
Jia P., et al. A bias-reducing pathway enrichment analysis of genome-wide association data confirmed association of the MHC region with schizophrenia. J. Med. Genet. 2012, 49:96-103.
-
(2012)
J. Med. Genet.
, vol.49
, pp. 96-103
-
-
Jia, P.1
-
59
-
-
84883152926
-
Uncovering networks from genome-wide association studies via circular genomic permutation
-
Cabrera C.P., et al. Uncovering networks from genome-wide association studies via circular genomic permutation. G3 (Bethesda) 2012, 2:1067-1075.
-
(2012)
G3 (Bethesda)
, vol.2
, pp. 1067-1075
-
-
Cabrera, C.P.1
-
60
-
-
35348890683
-
On testing the significance of sets of genes
-
Efron B., Tibshirani R. On testing the significance of sets of genes. Ann. Appl. Stat. 2007, 1:107.
-
(2007)
Ann. Appl. Stat.
, vol.1
, pp. 107
-
-
Efron, B.1
Tibshirani, R.2
-
61
-
-
84866127370
-
HYST: a hybrid set-based test for genome-wide association studies, with application to protein-protein interaction-based association analysis
-
Li M.X., et al. HYST: a hybrid set-based test for genome-wide association studies, with application to protein-protein interaction-based association analysis. Am. J. Hum. Genet. 2012, 91:478-488.
-
(2012)
Am. J. Hum. Genet.
, vol.91
, pp. 478-488
-
-
Li, M.X.1
-
62
-
-
79952467494
-
GATES: a rapid and powerful gene-based association test using extended Simes procedure
-
Li M.X., et al. GATES: a rapid and powerful gene-based association test using extended Simes procedure. Am. J. Hum. Genet. 2011, 88:283-293.
-
(2011)
Am. J. Hum. Genet.
, vol.88
, pp. 283-293
-
-
Li, M.X.1
-
63
-
-
58349112341
-
Prioritizing risk pathways: a novel association approach to searching for disease pathways fusing SNPs and pathways
-
Chen L., et al. Prioritizing risk pathways: a novel association approach to searching for disease pathways fusing SNPs and pathways. Bioinformatics 2009, 25:237-242.
-
(2009)
Bioinformatics
, vol.25
, pp. 237-242
-
-
Chen, L.1
-
64
-
-
77954300600
-
GSA-SNP: a general approach for gene set analysis of polymorphisms
-
Nam D., et al. GSA-SNP: a general approach for gene set analysis of polymorphisms. Nucleic Acids Res. 2010, 38:W749-W754.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Nam, D.1
-
65
-
-
84883305720
-
Pathway-PDT: a flexible pathway analysis tool for nuclear families
-
Park Y.S., et al. Pathway-PDT: a flexible pathway analysis tool for nuclear families. BMC Bioinformatics 2013, 14:267.
-
(2013)
BMC Bioinformatics
, vol.14
, pp. 267
-
-
Park, Y.S.1
-
66
-
-
84880617636
-
WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013
-
Wang J., et al. WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013. Nucleic Acids Res. 2013, 41:W77-W83.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Wang, J.1
-
67
-
-
77954246243
-
I-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study
-
Zhang K., et al. i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study. Nucleic Acids Res. 2010, 38:W90-W95.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Zhang, K.1
-
68
-
-
79959928376
-
ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework
-
Zhang K., et al. ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework. Nucleic Acids Res. 2011, 39:W437-W443.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Zhang, K.1
-
69
-
-
61549115034
-
Diverse genome-wide association studies associate the IL12/IL23 pathway with Crohn Disease
-
Wang K., et al. Diverse genome-wide association studies associate the IL12/IL23 pathway with Crohn Disease. Am. J. Hum. Genet. 2009, 84:399-405.
-
(2009)
Am. J. Hum. Genet.
, vol.84
, pp. 399-405
-
-
Wang, K.1
-
70
-
-
67849101185
-
Gene set-based analysis of polymorphisms: finding pathways or biological processes associated to traits in genome-wide association studies
-
Medina I., et al. Gene set-based analysis of polymorphisms: finding pathways or biological processes associated to traits in genome-wide association studies. Nucleic Acids Res. 2009, 37:W340-W344.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Medina, I.1
-
71
-
-
36249029788
-
Pathway-based approaches for analysis of genomewide association studies
-
Wang K., et al. Pathway-based approaches for analysis of genomewide association studies. Am. J. Hum. Genet. 2007, 81:1278-1283.
-
(2007)
Am. J. Hum. Genet.
, vol.81
, pp. 1278-1283
-
-
Wang, K.1
-
72
-
-
77957342306
-
Common inherited variation in mitochondrial genes is not enriched for associations with type 2 diabetes or related glycemic traits
-
Segrè A.V., et al. Common inherited variation in mitochondrial genes is not enriched for associations with type 2 diabetes or related glycemic traits. PLoS Genet. 2010, 6:e1001058.
-
(2010)
PLoS Genet.
, vol.6
-
-
Segrè, A.V.1
-
73
-
-
34548292504
-
PLINK: a tool set for whole-genome association and population-based linkage analyses
-
Purcell S., et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 2007, 81:559-575.
-
(2007)
Am. J. Hum. Genet.
, vol.81
, pp. 559-575
-
-
Purcell, S.1
-
74
-
-
56649097558
-
GSEA-SNP: applying gene set enrichment analysis to SNP data from genome-wide association studies
-
Holden M., et al. GSEA-SNP: applying gene set enrichment analysis to SNP data from genome-wide association studies. Bioinformatics 2008, 24:2784-2785.
-
(2008)
Bioinformatics
, vol.24
, pp. 2784-2785
-
-
Holden, M.1
-
75
-
-
65549093349
-
GLOSSI: a method to assess the association of genetic loci-sets with complex diseases
-
Chai H.S., et al. GLOSSI: a method to assess the association of genetic loci-sets with complex diseases. BMC Bioinformatics 2009, 10:102.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 102
-
-
Chai, H.S.1
-
76
-
-
70349991890
-
The SNP ratio test: pathway analysis of genome-wide association datasets
-
O'Dushlaine C., et al. The SNP ratio test: pathway analysis of genome-wide association datasets. Bioinformatics 2009, 25:2762-2763.
-
(2009)
Bioinformatics
, vol.25
, pp. 2762-2763
-
-
O'Dushlaine, C.1
-
77
-
-
84863987483
-
INRICH: interval-based enrichment analysis for genome-wide association studies
-
Lee P.H., et al. INRICH: interval-based enrichment analysis for genome-wide association studies. Bioinformatics 2012, 28:1797-1799.
-
(2012)
Bioinformatics
, vol.28
, pp. 1797-1799
-
-
Lee, P.H.1
-
78
-
-
77952214662
-
GREAT improves functional interpretation of cis-regulatory regions
-
McLean C.Y., et al. GREAT improves functional interpretation of cis-regulatory regions. Nat. Biotechnol. 2010, 28:495-501.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 495-501
-
-
McLean, C.Y.1
-
79
-
-
79955121427
-
SNP-based pathway enrichment analysis for genome-wide association studies
-
Weng L., et al. SNP-based pathway enrichment analysis for genome-wide association studies. BMC Bioinformatics 2011, 12:99.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 99
-
-
Weng, L.1
-
80
-
-
84865123842
-
Gowinda: unbiased analysis of gene set enrichment for genome-wide association studies
-
Kofler R., Schlötterer C. Gowinda: unbiased analysis of gene set enrichment for genome-wide association studies. Bioinformatics 2012, 28:2084-2085.
-
(2012)
Bioinformatics
, vol.28
, pp. 2084-2085
-
-
Kofler, R.1
Schlötterer, C.2
-
81
-
-
84861212058
-
GeneSetDB: a comprehensive meta-database, statistical and visualisation framework for gene set analysis
-
Araki H., et al. GeneSetDB: a comprehensive meta-database, statistical and visualisation framework for gene set analysis. FEBS Open Bio 2012, 2:76-82.
-
(2012)
FEBS Open Bio
, vol.2
, pp. 76-82
-
-
Araki, H.1
-
82
-
-
84889958901
-
Gene set bagging for estimating the probability a statistically significant result will replicate
-
Jaffe A.E., et al. Gene set bagging for estimating the probability a statistically significant result will replicate. BMC Bioinformatics 2013, 14:360.
-
(2013)
BMC Bioinformatics
, vol.14
, pp. 360
-
-
Jaffe, A.E.1
-
83
-
-
79959814530
-
Pathways of distinction analysis: a new technique for multi-SNP analysis of GWAS data
-
Braun R., Buetow K. Pathways of distinction analysis: a new technique for multi-SNP analysis of GWAS data. PLoS Genet. 2011, 7:e1002101.
-
(2011)
PLoS Genet.
, vol.7
-
-
Braun, R.1
Buetow, K.2
-
84
-
-
84886388469
-
Integrative pathway-based approach for genome-wide association studies: identification of new pathways for rheumatoid arthritis and type 1 diabetes
-
Büchel F., et al. Integrative pathway-based approach for genome-wide association studies: identification of new pathways for rheumatoid arthritis and type 1 diabetes. PLoS ONE 2013, 8:e78577.
-
(2013)
PLoS ONE
, vol.8
-
-
Büchel, F.1
-
85
-
-
79955573495
-
Incorporating biological pathways via a Markov random field model in genome-wide association studies
-
Chen M., et al. Incorporating biological pathways via a Markov random field model in genome-wide association studies. PLoS Genet. 2011, 7:e1001353.
-
(2011)
PLoS Genet.
, vol.7
-
-
Chen, M.1
-
86
-
-
84866449583
-
EnrichNet: network-based gene set enrichment analysis
-
Glaab E., et al. EnrichNet: network-based gene set enrichment analysis. Bioinformatics 2012, 28:i451-i457.
-
(2012)
Bioinformatics
, vol.28
-
-
Glaab, E.1
-
87
-
-
77952866079
-
TopoGSA: network topological gene set analysis
-
Glaab E., et al. TopoGSA: network topological gene set analysis. Bioinformatics 2010, 26:1271-1272.
-
(2010)
Bioinformatics
, vol.26
, pp. 1271-1272
-
-
Glaab, E.1
-
88
-
-
84861804088
-
Centrality-based pathway enrichment: a systematic approach for finding significant pathways dominated by key genes
-
Gu Z., et al. Centrality-based pathway enrichment: a systematic approach for finding significant pathways dominated by key genes. BMC Syst. Biol. 2012, 6:56.
-
(2012)
BMC Syst. Biol.
, vol.6
, pp. 56
-
-
Gu, Z.1
-
89
-
-
84874720474
-
CePa: an R package for finding significant pathways weighted by multiple network centralities
-
Gu Z., Wang J. CePa: an R package for finding significant pathways weighted by multiple network centralities. Bioinformatics 2013, 29:658-660.
-
(2013)
Bioinformatics
, vol.29
, pp. 658-660
-
-
Gu, Z.1
Wang, J.2
-
90
-
-
84875940659
-
THINK Back: KNowledge-based Interpretation of High Throughput data
-
Farfán F., et al. THINK Back: KNowledge-based Interpretation of High Throughput data. BMC Bioinformatics 2012, 13(Suppl. 2):S4.
-
(2012)
BMC Bioinformatics
, vol.13
, Issue.SUPPL. 2
-
-
Farfán, F.1
-
91
-
-
79851502150
-
Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology
-
Rossin E.J., et al. Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology. PLoS Genet. 2011, 7:e1001273.
-
(2011)
PLoS Genet.
, vol.7
-
-
Rossin, E.J.1
-
92
-
-
67651205715
-
Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions
-
Raychaudhuri S., et al. Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions. PLoS Genet. 2009, 5:e1000534.
-
(2009)
PLoS Genet.
, vol.5
-
-
Raychaudhuri, S.1
-
93
-
-
13344278672
-
Content-rich biological network constructed by mining PubMed abstracts
-
Chen H., Sharp B.M. Content-rich biological network constructed by mining PubMed abstracts. BMC Bioinformatics 2004, 5:147.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 147
-
-
Chen, H.1
Sharp, B.M.2
-
94
-
-
84877309040
-
Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods
-
Väremo L., et al. Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods. Nucleic Acids Res. 2013, 41:4378-4391.
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 4378-4391
-
-
Väremo, L.1
|