A review of kernel methods for genetic association studies

NB Larson, J Chen, DJ Schaid - Genetic epidemiology, 2019 - Wiley Online Library
Evaluating the association of multiple genetic variants with a trait of interest by use of kernel‐
based methods has made a significant impact on how genetic association analyses are …

Unravelling rubber tree growth by integrating GWAS and biological network-based approaches

FR Francisco, AH Aono, CC Da Silva… - Frontiers in plant …, 2021 - frontiersin.org
Hevea brasiliensis (rubber tree) is a large tree species of the Euphorbiaceae family with
inestimable economic importance. Rubber tree breeding programs currently aim to improve …

cLD: Rare-variant linkage disequilibrium between genomic regions identifies novel genomic interactions

D Wang, D Perera, J He, C Cao, P Kossinna, Q Li… - PLoS …, 2023 - journals.plos.org
Linkage disequilibrium (LD) is a fundamental concept in genetics; critical for studying
genetic associations and molecular evolution. However, LD measurements are only reliable …

A kernel machine method for detecting higher order interactions in multimodal datasets: Application to schizophrenia

MA Alam, HY Lin, HW Deng, VD Calhoun… - Journal of neuroscience …, 2018 - Elsevier
Background Technological advances are enabling us to collect multimodal datasets at an
increasing depth and resolution while with decreasing labors. Understanding complex …

A gene-based information gain method for detecting gene–gene interactions in case–control studies

J Li, D Huang, M Guo, X Liu, C Wang, Z Teng… - European Journal of …, 2015 - nature.com
Currently, most methods for detecting gene–gene interactions (GGIs) in genome-wide
association studies are divided into SNP-based methods and gene-based methods …

Genetic-epigenetic interactions in asthma revealed by a genome-wide gene-centric search

V Kogan, J Millstein, SJ London, C Ober, SR White… - Human …, 2019 - karger.com
Objectives: There is evidence to suggest that asthma pathogenesis is affected by both
genetic and epigenetic variation independently, and there is some evidence to suggest that …

A kernel regression approach to gene‐gene interaction detection for case‐control studies

NB Larson, DJ Schaid - Genetic epidemiology, 2013 - Wiley Online Library
Gene‐gene interactions are increasingly being addressed as a potentially important
contributor to the variability of complex traits. Consequently, attentions have moved beyond …

A survey of statistical methods for gene-gene interaction in case-control genome-wide association studies

M Emily - Journal de la société française de statistique, 2018 - numdam.org
Over the last few years, case-control genome-wide association studies (GWAS) have proven
to be a successful tool to identify genomic regions associated with complex diseases …

Functional genomics in cancer immunotherapy: computational approaches for biomarker and drug discovery

WL Chin, RM Zemek, WJ Lesterhuis… - … Systems Design & …, 2019 - pubs.rsc.org
Although immunotherapy has recently proven effective in some cancers, most patients with
metastatic cancer do not benefit from this therapy. A lack of understanding of the …

Eigen-Epistasis for detecting gene-gene interactions

V Stanislas, C Dalmasso, C Ambroise - BMC bioinformatics, 2017 - Springer
Background A large amount of research has been devoted to the detection and investigation
of epistatic interactions in genome-wide association studies (GWASs). Most of the literature …