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For: Kam-Thong T, Czamara D, Tsuda K, Borgwardt K, Lewis CM, Erhardt-Lehmann A, Hemmer B, Rieckmann P, Daake M, Weber F, Wolf C, Ziegler A, Pütz B, Holsboer F, Schölkopf B, Müller-Myhsok B. EPIBLASTER-fast exhaustive two-locus epistasis detection strategy using graphical processing units. Eur J Hum Genet 2011;19:465-71. [PMID: 21150885 DOI: 10.1038/ejhg.2010.196] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]  Open
Number Cited by Other Article(s)
1
Ren W, Liang Z. Review on GPU accelerated methods for genome-wide SNP-SNP interactions. Mol Genet Genomics 2024;300:10. [PMID: 39738695 DOI: 10.1007/s00438-024-02214-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2024] [Accepted: 12/11/2024] [Indexed: 01/02/2025]
2
Wang Q, Tang TM, Youlton N, Weldy CS, Kenney AM, Ronen O, Weston Hughes J, Chin ET, Sutton SC, Agarwal A, Li X, Behr M, Kumbier K, Moravec CS, Wilson Tang WH, Margulies KB, Cappola TP, Butte AJ, Arnaout R, Brown JB, Priest JR, Parikh VN, Yu B, Ashley EA. Epistasis regulates genetic control of cardiac hypertrophy. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2023.11.06.23297858. [PMID: 37987017 PMCID: PMC10659487 DOI: 10.1101/2023.11.06.23297858] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2023]
3
Czaja AJ. Missing Causality and Heritability of Autoimmune Hepatitis. Dig Dis Sci 2023;68:1585-1604. [PMID: 36261672 DOI: 10.1007/s10620-022-07728-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/27/2022] [Accepted: 10/10/2022] [Indexed: 12/09/2022]
4
Alamin M, Sultana MH, Lou X, Jin W, Xu H. Dissecting Complex Traits Using Omics Data: A Review on the Linear Mixed Models and Their Application in GWAS. PLANTS (BASEL, SWITZERLAND) 2022;11:3277. [PMID: 36501317 PMCID: PMC9739826 DOI: 10.3390/plants11233277] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Revised: 11/23/2022] [Accepted: 11/25/2022] [Indexed: 06/17/2023]
5
Amorim ST, Stafuzza NB, Kluska S, Peripolli E, Pereira ASC, Muller da Silveira LF, de Albuquerque LG, Baldi F. Genome-wide interaction study reveals epistatic interactions for beef lipid-related traits in Nellore cattle. Anim Genet 2021;53:35-48. [PMID: 34407235 DOI: 10.1111/age.13124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/02/2021] [Indexed: 11/27/2022]
6
Pecanka J, Jonker MA. Two-Stage Testing for Epistasis: Screening and Verification. Methods Mol Biol 2021;2212:69-92. [PMID: 33733351 DOI: 10.1007/978-1-0716-0947-7_6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
7
Tyler AL, Emerson J, El Kassaby B, Wells AE, Philip VM, Carter GW. The Combined Analysis of Pleiotropy and Epistasis (CAPE). Methods Mol Biol 2021;2212:55-67. [PMID: 33733350 DOI: 10.1007/978-1-0716-0947-7_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
8
Genetic control of non-genetic inheritance in mammals: state-of-the-art and perspectives. Mamm Genome 2020;31:146-156. [PMID: 32529318 PMCID: PMC7369129 DOI: 10.1007/s00335-020-09841-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 06/03/2020] [Indexed: 12/12/2022]
9
Wang H, Yue T, Yang J, Wu W, Xing EP. Deep mixed model for marginal epistasis detection and population stratification correction in genome-wide association studies. BMC Bioinformatics 2019;20:656. [PMID: 31881907 PMCID: PMC6933893 DOI: 10.1186/s12859-019-3300-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2019] [Accepted: 12/02/2019] [Indexed: 02/07/2023]  Open
10
Zhu S, Fang G. MatrixEpistasis: ultrafast, exhaustive epistasis scan for quantitative traits with covariate adjustment. Bioinformatics 2019;34:2341-2348. [PMID: 29509873 DOI: 10.1093/bioinformatics/bty094] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2017] [Accepted: 02/28/2018] [Indexed: 12/22/2022]  Open
11
Yan J, Risacher SL, Shen L, Saykin AJ. Network approaches to systems biology analysis of complex disease: integrative methods for multi-omics data. Brief Bioinform 2019;19:1370-1381. [PMID: 28679163 DOI: 10.1093/bib/bbx066] [Citation(s) in RCA: 135] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Indexed: 11/14/2022]  Open
12
Joiret M, Mahachie John JM, Gusareva ES, Van Steen K. Confounding of linkage disequilibrium patterns in large scale DNA based gene-gene interaction studies. BioData Min 2019;12:11. [PMID: 31198442 PMCID: PMC6558841 DOI: 10.1186/s13040-019-0199-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2019] [Accepted: 05/09/2019] [Indexed: 01/07/2023]  Open
13
Van Steen K, Moore JH. How to increase our belief in discovered statistical interactions via large-scale association studies? Hum Genet 2019;138:293-305. [PMID: 30840129 PMCID: PMC6483943 DOI: 10.1007/s00439-019-01987-w] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Accepted: 02/20/2019] [Indexed: 12/31/2022]
14
Carmelo VAO, Kogelman LJA, Madsen MB, Kadarmideen HN. WISH-R- a fast and efficient tool for construction of epistatic networks for complex traits and diseases. BMC Bioinformatics 2018;19:277. [PMID: 30064383 PMCID: PMC6069724 DOI: 10.1186/s12859-018-2291-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2017] [Accepted: 07/18/2018] [Indexed: 12/28/2022]  Open
15
Chatelain C, Durand G, Thuillier V, Augé F. Performance of epistasis detection methods in semi-simulated GWAS. BMC Bioinformatics 2018;19:231. [PMID: 29914375 PMCID: PMC6006572 DOI: 10.1186/s12859-018-2229-8] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2017] [Accepted: 06/04/2018] [Indexed: 01/23/2023]  Open
16
Pecanka J, Jonker MA, Bochdanovits Z, Van Der Vaart AW. A powerful and efficient two-stage method for detecting gene-to-gene interactions in GWAS. Biostatistics 2018;18:477-494. [PMID: 28334077 DOI: 10.1093/biostatistics/kxw060] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Accepted: 11/05/2016] [Indexed: 11/13/2022]  Open
17
Hill A, Loh PR, Bharadwaj RB, Pons P, Shang J, Guinan E, Lakhani K, Kilty I, Jelinsky SA. Stepwise Distributed Open Innovation Contests for Software Development: Acceleration of Genome-Wide Association Analysis. Gigascience 2018;6:1-10. [PMID: 28327993 PMCID: PMC5467032 DOI: 10.1093/gigascience/gix009] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2016] [Accepted: 12/18/2016] [Indexed: 11/12/2022]  Open
18
Gumpinger AC, Roqueiro D, Grimm DG, Borgwardt KM. Methods and Tools in Genome-wide Association Studies. Methods Mol Biol 2018;1819:93-136. [PMID: 30421401 DOI: 10.1007/978-1-4939-8618-7_5] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
19
Li R, Kim D, Ritchie MD. Methods to analyze big data in pharmacogenomics research. Pharmacogenomics 2017;18:807-820. [PMID: 28612644 DOI: 10.2217/pgs-2016-0152] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]  Open
20
Kao PYP, Leung KH, Chan LWC, Yip SP, Yap MKH. Pathway analysis of complex diseases for GWAS, extending to consider rare variants, multi-omics and interactions. Biochim Biophys Acta Gen Subj 2016;1861:335-353. [PMID: 27888147 DOI: 10.1016/j.bbagen.2016.11.030] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Revised: 10/17/2016] [Accepted: 11/19/2016] [Indexed: 12/20/2022]
21
Zhang F, Xie D, Liang M, Xiong M. Functional Regression Models for Epistasis Analysis of Multiple Quantitative Traits. PLoS Genet 2016;12:e1005965. [PMID: 27104857 PMCID: PMC4841563 DOI: 10.1371/journal.pgen.1005965] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Accepted: 03/08/2016] [Indexed: 12/02/2022]  Open
22
Shen J, Li Z, Chen J, Song Z, Zhou Z, Shi Y. SHEsisPlus, a toolset for genetic studies on polyploid species. Sci Rep 2016;6:24095. [PMID: 27048905 PMCID: PMC4822172 DOI: 10.1038/srep24095] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 03/17/2016] [Indexed: 11/09/2022]  Open
23
FHSA-SED: Two-Locus Model Detection for Genome-Wide Association Study with Harmony Search Algorithm. PLoS One 2016;11:e0150669. [PMID: 27014873 PMCID: PMC4807955 DOI: 10.1371/journal.pone.0150669] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2015] [Accepted: 02/16/2016] [Indexed: 12/24/2022]  Open
24
Mellerup E, Moeller GL, Mondal P, Roychoudhury S. Combinations of genetic data in a study of oral cancer. Genes Cancer 2015;6:422-7. [PMID: 26622944 PMCID: PMC4633169 DOI: 10.18632/genesandcancer.79] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]  Open
25
Lishout FV, Gadaleta F, Moore JH, Wehenkel L, Steen KV. gammaMAXT: a fast multiple-testing correction algorithm. BioData Min 2015;8:36. [PMID: 26594243 PMCID: PMC4654922 DOI: 10.1186/s13040-015-0069-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2015] [Accepted: 11/08/2015] [Indexed: 02/07/2023]  Open
26
Mellerup E, Andreassen OA, Bennike B, Dam H, Djurovic S, Hansen T, Jorgensen MB, Kessing LV, Koefoed P, Melle I, Mors O, Werge T, Moeller GL. Combinations of Genetic Data Present in Bipolar Patients, but Absent in Control Persons. PLoS One 2015;10:e0143432. [PMID: 26587987 PMCID: PMC4654514 DOI: 10.1371/journal.pone.0143432] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2015] [Accepted: 11/04/2015] [Indexed: 11/19/2022]  Open
27
Software for detecting gene-gene interactions in genome wide association studies. BIOTECHNOL BIOPROC E 2015. [DOI: 10.1007/s12257-015-0064-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
28
Al-jouie A, Esfandiari M, Ramakrishnan S, Roshan U. Chi8: a GPU program for detecting significant interacting SNPs with the Chi-square 8-df test. BMC Res Notes 2015;8:436. [PMID: 26369336 PMCID: PMC4568583 DOI: 10.1186/s13104-015-1392-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Accepted: 08/24/2015] [Indexed: 11/10/2022]  Open
29
Upton A, Trelles O, Cornejo-García JA, Perkins JR. Review: High-performance computing to detect epistasis in genome scale data sets. Brief Bioinform 2015;17:368-79. [PMID: 26272945 DOI: 10.1093/bib/bbv058] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Indexed: 11/14/2022]  Open
30
Zhang FT, Zhu ZH, Tong XR, Zhu ZX, Qi T, Zhu J. Mixed Linear Model Approaches of Association Mapping for Complex Traits Based on Omics Variants. Sci Rep 2015. [PMID: 26223539 PMCID: PMC5155518 DOI: 10.1038/srep10298] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]  Open
31
Brenndörfer J, Altmann A, Widner-Andrä R, Pütz B, Czamara D, Tilch E, Kam-Thong T, Weber P, Rex-Haffner M, Bettecken T, Bultmann A, Müller-Myhsok B, Binder EE, Landgraf R, Czibere L. Connecting Anxiety and Genomic Copy Number Variation: A Genome-Wide Analysis in CD-1 Mice. PLoS One 2015;10:e0128465. [PMID: 26011321 PMCID: PMC4444327 DOI: 10.1371/journal.pone.0128465] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2014] [Accepted: 04/27/2015] [Indexed: 12/05/2022]  Open
32
Brossard M, Fang S, Vaysse A, Wei Q, Chen WV, Mohamdi H, Maubec E, Lavielle N, Galan P, Lathrop M, Avril MF, Lee JE, Amos CI, Demenais F. Integrated pathway and epistasis analysis reveals interactive effect of genetic variants at TERF1 and AFAP1L2 loci on melanoma risk. Int J Cancer 2015;137:1901-1909. [PMID: 25892537 DOI: 10.1002/ijc.29570] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Revised: 03/12/2015] [Accepted: 03/30/2015] [Indexed: 12/18/2022]
33
Daya M, van der Merwe L, van Helden PD, Möller M, Hoal EG. Investigating the Role of Gene-Gene Interactions in TB Susceptibility. PLoS One 2015;10:e0123970. [PMID: 25919455 PMCID: PMC4412713 DOI: 10.1371/journal.pone.0123970] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Accepted: 02/24/2015] [Indexed: 11/22/2022]  Open
34
Babron MC, Etcheto A, Dizier MH. A New Correction for Multiple Testing in Gene-Gene Interaction Studies. Ann Hum Genet 2015;79:380-384. [PMID: 25912889 DOI: 10.1111/ahg.12113] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Accepted: 02/26/2015] [Indexed: 11/30/2022]
35
Grange L, Bureau JF, Nikolayeva I, Paul R, Van Steen K, Schwikowski B, Sakuntabhai A. Filter-free exhaustive odds ratio-based genome-wide interaction approach pinpoints evidence for interaction in the HLA region in psoriasis. BMC Genet 2015;16:11. [PMID: 25655172 PMCID: PMC4341885 DOI: 10.1186/s12863-015-0174-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2014] [Accepted: 01/23/2015] [Indexed: 12/02/2022]  Open
36
Hibar DP, Stein JL, Jahanshad N, Kohannim O, Hua X, Toga AW, McMahon KL, de Zubicaray GI, Martin NG, Wright MJ, Weiner MW, Thompson PM. Genome-wide interaction analysis reveals replicated epistatic effects on brain structure. Neurobiol Aging 2015;36 Suppl 1:S151-8. [PMID: 25264344 PMCID: PMC4332874 DOI: 10.1016/j.neurobiolaging.2014.02.033] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2013] [Revised: 02/10/2014] [Accepted: 02/16/2014] [Indexed: 11/24/2022]
37
Levin L, Mishmar D. A Genetic View of the Mitochondrial Role in Ageing: Killing Us Softly. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2015;847:89-106. [DOI: 10.1007/978-1-4939-2404-2_4] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
38
Detecting epistasis in human complex traits. Nat Rev Genet 2014;15:722-33. [PMID: 25200660 DOI: 10.1038/nrg3747] [Citation(s) in RCA: 275] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
39
Gusareva ES, Van Steen K. Practical aspects of genome-wide association interaction analysis. Hum Genet 2014;133:1343-58. [DOI: 10.1007/s00439-014-1480-y] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2014] [Accepted: 08/18/2014] [Indexed: 12/31/2022]
40
Ueki M. On the choice of degrees of freedom for testing gene-gene interactions. Stat Med 2014;33:4934-48. [DOI: 10.1002/sim.6264] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2013] [Revised: 06/13/2014] [Accepted: 06/20/2014] [Indexed: 12/24/2022]
41
Sluga D, Curk T, Zupan B, Lotric U. Heterogeneous computing architecture for fast detection of SNP-SNP interactions. BMC Bioinformatics 2014;15:216. [PMID: 24964802 PMCID: PMC4230497 DOI: 10.1186/1471-2105-15-216] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Accepted: 06/19/2014] [Indexed: 12/04/2022]  Open
42
Zhang Q, Long Q, Ott J. AprioriGWAS, a new pattern mining strategy for detecting genetic variants associated with disease through interaction effects. PLoS Comput Biol 2014;10:e1003627. [PMID: 24901472 PMCID: PMC4046917 DOI: 10.1371/journal.pcbi.1003627] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2013] [Accepted: 04/01/2014] [Indexed: 12/11/2022]  Open
43
Sun X, Lu Q, Mukherjee S, Crane PK, Elston R, Ritchie MD. Analysis pipeline for the epistasis search - statistical versus biological filtering. Front Genet 2014;5:106. [PMID: 24817878 PMCID: PMC4012196 DOI: 10.3389/fgene.2014.00106] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2014] [Accepted: 04/10/2014] [Indexed: 12/15/2022]  Open
44
Gou J, Zhao Y, Wei Y, Wu C, Zhang R, Qiu Y, Zeng P, Tan W, Yu D, Wu T, Hu Z, Lin D, Shen H, Chen F. Stability SCAD: a powerful approach to detect interactions in large-scale genomic study. BMC Bioinformatics 2014;15:62. [PMID: 24580776 PMCID: PMC3984751 DOI: 10.1186/1471-2105-15-62] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Accepted: 02/18/2014] [Indexed: 11/25/2022]  Open
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Hu JK, Wang X, Wang P. Testing gene-gene interactions in genome wide association studies. Genet Epidemiol 2014;38:123-34. [PMID: 24431225 DOI: 10.1002/gepi.21786] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2013] [Revised: 10/11/2013] [Accepted: 12/02/2013] [Indexed: 11/07/2022]
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Chen GK, Guo Y. Discovering epistasis in large scale genetic association studies by exploiting graphics cards. Front Genet 2013;4:266. [PMID: 24348518 PMCID: PMC3848199 DOI: 10.3389/fgene.2013.00266] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2013] [Accepted: 11/16/2013] [Indexed: 11/13/2022]  Open
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Bonifaci N, Colas E, Serra-Musach J, Karbalai N, Brunet J, Gómez A, Esteller M, Fernández-Taboada E, Berenguer A, Reventós J, Müller-Myhsok B, Amundadottir L, Duell EJ, Pujana MÀ. Integrating gene expression and epidemiological data for the discovery of genetic interactions associated with cancer risk. Carcinogenesis 2013;35:578-85. [PMID: 24296589 DOI: 10.1093/carcin/bgt403] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]  Open
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From interaction to co-association --a Fisher r-to-z transformation-based simple statistic for real world genome-wide association study. PLoS One 2013;8:e70774. [PMID: 23923021 PMCID: PMC3726765 DOI: 10.1371/journal.pone.0070774] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2013] [Accepted: 06/21/2013] [Indexed: 12/21/2022]  Open
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Lewinger JP, Morrison JL, Thomas DC, Murcray CE, Conti DV, Li D, Gauderman WJ. Efficient two-step testing of gene-gene interactions in genome-wide association studies. Genet Epidemiol 2013;37:440-51. [PMID: 23633124 DOI: 10.1002/gepi.21720] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2012] [Revised: 12/12/2012] [Accepted: 02/06/2013] [Indexed: 11/06/2022]
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Hemani G, Knott S, Haley C. An evolutionary perspective on epistasis and the missing heritability. PLoS Genet 2013;9:e1003295. [PMID: 23509438 PMCID: PMC3585114 DOI: 10.1371/journal.pgen.1003295] [Citation(s) in RCA: 81] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2012] [Accepted: 12/17/2012] [Indexed: 01/04/2023]  Open
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