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. 2019 Feb 25;9:2695. doi: 10.1038/s41598-019-39633-0

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© The Author(s) 2019

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Definition of AS-SNPs at a population level. ChIP-seq reads were aligned to personalized genomes for each cell line and summed across cell lines at heterozygous positions. The resulting allele specific read count was tested for statistical significance to identify AS-SNPs defined at a population level. Case1: common AS-SNPs already observed in individual cell line maintain the statistically significant difference in reads count between the alleles also at a population level. Case2: common SNPs that are not showing statistically significant difference in read counts between the two alleles in a single cell line might surface as AS-SNPs when looking for AS binding in the population.