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An exponential combination procedure for set-based association tests in sequencing studies.

Chen LS, Hsu L, Gamazon ER, Cox NJ, Nicolae DL.

Am J Hum Genet. 2012 Dec 7;91(6):977-86. doi: 10.1016/j.ajhg.2012.09.017. Epub 2012 Nov 15.


Powerful Set-Based Gene-Environment Interaction Testing Framework for Complex Diseases.

Jiao S, Peters U, Berndt S, Bézieau S, Brenner H, Campbell PT, Chan AT, Chang-Claude J, Lemire M, Newcomb PA, Potter JD, Slattery ML, Woods MO, Hsu L.

Genet Epidemiol. 2015 Jun 10. doi: 10.1002/gepi.21908. [Epub ahead of print]


Empirical Bayes scan statistics for detecting clusters of disease risk variants in genetic studies.

McCallum KJ, Ionita-Laza I.

Biometrics. 2015 Jun 1. doi: 10.1111/biom.12331. [Epub ahead of print]


SVSI: Fast and Powerful Set-Valued System Identification Approach to Identifying Rare Variants in Sequencing Studies for Ordered Categorical Traits.

Bi W, Kang G, Zhao Y, Cui Y, Yan S, Li Y, Cheng C, Pounds SB, Borowitz MJ, Relling MV, Yang JJ, Liu Z, Pui CH, Hunger SP, Hartford CM, Leung W, Zhang JF.

Ann Hum Genet. 2015 Jul;79(4):294-309. doi: 10.1111/ahg.12117. Epub 2015 May 11.


A robust GWSS method to simultaneously detect rare and common variants for complex disease.

Kao CF, Liu JR, Hung H, Kuo PH.

PLoS One. 2015 Apr 16;10(4):e0120873. doi: 10.1371/journal.pone.0120873. eCollection 2015.


Kullback-Leibler distance methods for detecting disease association with rare variants from sequencing data.

Turkmen AS, Yan Z, Hu YQ, Lin S.

Ann Hum Genet. 2015 May;79(3):199-208. doi: 10.1111/ahg.12103. Epub 2015 Feb 27.


Insight into neutral and disease-associated human genetic variants through interpretable predictors.

van den Berg BA, Reinders MJ, de Ridder D, de Beer TA.

PLoS One. 2015 Mar 31;10(3):e0120729. doi: 10.1371/journal.pone.0120729. eCollection 2015.


A new statistical approach to combining p-values using gamma distribution and its application to genome-wide association study.

Chen Z, Yang W, Liu Q, Yang JY, Li J, Yang M.

BMC Bioinformatics. 2014;15 Suppl 17:S3. doi: 10.1186/1471-2105-15-S17-S3. Epub 2014 Dec 16.


Detecting association of rare and common variants by testing an optimally weighted combination of variants with longitudinal data.

Wang S, Fang S, Sha Q, Zhang S.

BMC Proc. 2014 Jun 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S91. doi: 10.1186/1753-6561-8-S1-S91. eCollection 2014.


Gene-based analysis of rare and common variants to determine association with blood pressure.

Liu X, Beyene J.

BMC Proc. 2014 Jun 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S46. doi: 10.1186/1753-6561-8-S1-S46. eCollection 2014.


Application of family-based tests of association for rare variants to pathways.

Greco B, Luedtke A, Hainline A, Alvarez C, Beck A, Tintle NL.

BMC Proc. 2014 Jun 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S105. doi: 10.1186/1753-6561-8-S1-S105. eCollection 2014.


Integrated statistical and pathway approach to next-generation sequencing analysis: a family-based study of hypertension.

Edwards JS, Atlas SR, Wilson SM, Cooper CF, Luo L, Stidley CA.

BMC Proc. 2014 Jun 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S104. doi: 10.1186/1753-6561-8-S1-S104. eCollection 2014.


Evaluation of the power and type I error of recently proposed family-based tests of association for rare variants.

Hainline A, Alvarez C, Luedtke A, Greco B, Beck A, Tintle NL.

BMC Proc. 2014 Jun 17;8(Suppl 1):S36. doi: 10.1186/1753-6561-8-S1-S36. eCollection 2014.


Identification of rare causal variants in sequence-based studies: methods and applications to VPS13B, a gene involved in Cohen syndrome and autism.

Ionita-Laza I, Capanu M, De Rubeis S, McCallum K, Buxbaum JD.

PLoS Genet. 2014 Dec 11;10(12):e1004729. doi: 10.1371/journal.pgen.1004729. eCollection 2014 Dec.


Reproducible simulations of realistic samples for next-generation sequencing studies using Variant Simulation Tools.

Peng B.

Genet Epidemiol. 2015 Jan;39(1):45-52. doi: 10.1002/gepi.21867. Epub 2014 Nov 13.


Genetic simulation tools for post-genome wide association studies of complex diseases.

Chen HS, Hutter CM, Mechanic LE, Amos CI, Bafna V, Hauser ER, Hernandez RD, Li C, Liberles DA, McAllister K, Moore JH, Paltoo DN, Papanicolaou GJ, Peng B, Ritchie MD, Rosenfeld G, Witte JS, Gillanders EM, Feuer EJ.

Genet Epidemiol. 2015 Jan;39(1):11-9. doi: 10.1002/gepi.21870. Epub 2014 Nov 4.


A weighted U-statistic for genetic association analyses of sequencing data.

Wei C, Li M, He Z, Vsevolozhskaya O, Schaid DJ, Lu Q.

Genet Epidemiol. 2014 Dec;38(8):699-708. doi: 10.1002/gepi.21864. Epub 2014 Oct 20.


A comprehensive evaluation of collapsing methods using simulated and real data: excellent annotation of functionality and large sample sizes required.

Dering C, König IR, Ramsey LB, Relling MV, Yang W, Ziegler A.

Front Genet. 2014 Sep 15;5:323. doi: 10.3389/fgene.2014.00323. eCollection 2014.


A unified sparse representation for sequence variant identification for complex traits.

Cao S, Qin H, Deng HW, Wang YP.

Genet Epidemiol. 2014 Dec;38(8):671-9. doi: 10.1002/gepi.21849. Epub 2014 Sep 4.


Rare and low-frequency variants in human common diseases and other complex traits.

Lettre G.

J Med Genet. 2014 Nov;51(11):705-14. doi: 10.1136/jmedgenet-2014-102437. Epub 2014 Sep 3. Review.

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