Journal article
Genome-wide DNA methylation and gene expression patterns reflect genetic ancestry and environmental differences across the Indonesian archipelago.
Heini M Natri, Katalina S Bobowik, Pradiptajati Kusuma, Chelzie Crenna Darusallam, Guy S Jacobs, Georgi Hudjashov, J Stephen Lansing, Herawati Sudoyo, Nicholas E Banovich, Murray P Cox, Irene Gallego Romero
PLoS Genetics | Public Library of Science (PLoS) | Published : 2020
Open access
Abstract
Indonesia is the world's fourth most populous country, host to striking levels of human diversity, regional patterns of admixture, and varying degrees of introgression from both Neanderthals and Denisovans. However, it has been largely excluded from the human genomics sequencing boom of the last decade. To serve as a benchmark dataset of molecular phenotypes across the region, we generated genome-wide CpG methylation and gene expression measurements in over 100 individuals from three locations that capture the major genomic and geographical axes of diversity across the Indonesian archipelago. Investigating between- and within-island differences, we find up to 10.55% of tested genes are diffe..
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Awarded by Nanyang Technological University
Funding Acknowledgements
This work was supported by Royal Society of New Zealand Marsden Grant 17-MAU-040 to MPC and IGR (https://www.royalsociety.org.nz/); National Science Foundation Grant SES 0725470 to JSL (http://www.nsf.gov); Singapore Ministry of Education Tier II Grant MOE2015-T2-1-127 to JSL (https://www.moe.gov.sg/); NTU Presidential Postdoctoral Fellowship to GSJ (http://www.ntu.edu.sg); NTU Complexity Institute Individual Fellowship to PK (http://www.ntu.edu.sg), ASU Center for Evolution and Medicine postdoctoral fellowship to HMN (https://evmed.asu.edu/), a Prevent Cancer Foundation award to HMN (https://preventcancer.org/research/grantsfellowships/), a University of Melbourne Graduate Research Scholarship to KSB (http://www.unimelb.edu.au) and a University of Melbourne Miegunyah Distinguished Visiting Professor fellowship to MPC (http://www.unimelb.edu.au).The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.