An integrative machine learning approach to discovering multi-level molecular mechanisms of obesity using data from monozygotic twin pairs

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http://hdl.handle.net/10138/325958

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Kibble , M , Khan , S A , Ammad-ud-din , M , Bollepalli , S , Palviainen , T , Kaprio , J , Pietiläinen , K H & Ollikainen , M 2020 , ' An integrative machine learning approach to discovering multi-level molecular mechanisms of obesity using data from monozygotic twin pairs ' , Royal Society Open Science , vol. 7 , no. 10 , 200872 . https://doi.org/10.1098/rsos.200872

Title: An integrative machine learning approach to discovering multi-level molecular mechanisms of obesity using data from monozygotic twin pairs
Author: Kibble, Milla; Khan, Suleiman A.; Ammad-ud-din, Muhammad; Bollepalli, Sailalitha; Palviainen, Teemu; Kaprio, Jaakko; Pietiläinen, Kirsi H.; Ollikainen, Miina
Contributor: University of Helsinki, Epigenetics of Complex Diseases and Traits
University of Helsinki, Institute for Molecular Medicine Finland
University of Helsinki, Institute for Molecular Medicine Finland
University of Helsinki, Epigenetics of Complex Diseases and Traits
University of Helsinki, Genetic Epidemiology
University of Helsinki, Institute for Molecular Medicine Finland
University of Helsinki, HUS Abdominal Center
University of Helsinki, Institute for Molecular Medicine Finland
Date: 2020-10-21
Language: eng
Number of pages: 21
Belongs to series: Royal Society Open Science
ISSN: 2054-5703
URI: http://hdl.handle.net/10138/325958
Abstract: We combined clinical, cytokine, genomic, methylation and dietary data from 43 young adult monozygotic twin pairs (aged 22-36 years, 53% female), where 25 of the twin pairs were substantially weight discordant (delta body mass index > 3 kg m(-2)). These measurements were originally taken as part of the TwinFat study, a substudy of The Finnish Twin Cohort study. These five large multivariate datasets (comprising 42, 71, 1587, 1605 and 63 variables, respectively) were jointly analysed using an integrative machine learning method called group factor analysis (GFA) to offer new hypotheses into the multi-molecular-level interactions associated with the development of obesity. New potential links between cytokines and weight gain are identified, as well as associations between dietary, inflammatory and epigenetic factors. This encouraging case study aims to enthuse the research community to boldly attempt new machine learning approaches which have the potential to yield novel and unintuitive hypotheses. The source code of the GFA method is publically available as the R package GFA.
Subject: machine learning
big data
obesity
monozygotic twins
BODY-MASS INDEX
ARYL-HYDROCARBON RECEPTOR
SUBCUTANEOUS ADIPOSE-TISSUE
TIME PHYSICAL-ACTIVITY
GENE-EXPRESSION
DNA METHYLATION
INSULIN-RESISTANCE
WIDE ASSOCIATION
GUT MICROBIOME
DRUG RESPONSE
3121 General medicine, internal medicine and other clinical medicine
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