Identifying Liver Cancer-Related Enhancer SNPs by Integrating GWAS and Histone Modification ChIP-seq Data

Table 3

Summary of liver cancer-related regulatory SNPs validated by rVarBase.

SNP ID	Regulatory SNP	Distal regulation	Chromatin state	Related regulatory elements
rs12751375	Yes	No	Inactive region	n/a
rs6700866	Yes	No	Weak transcription; ZNF genes and repeats; strong transcription; enhancers	n/a
rs9494257	Yes	Yes	Enhancers; flanking active TSS; weak transcription	Chromatin interactive region
rs17064474	Yes	No	Weak transcription; active TSS; flanking active TSS; enhancers	n/a
rs17721919	Yes	No	Weak transcription	n/a
rs17721931	Yes	No	Weak transcription	n/a
rs6903949	Yes	Yes	Weak transcription; enhancers	TF binding region; chromatin interactive region
rs6996881	Yes	Yes	Weak transcription; enhancers	Chromatin interactive region
rs4739519	Yes	Yes	Enhancers; weak transcription	Chromatin interactive region
rs6988263	Yes	Yes	Enhancers; weak transcription; genic enhancers; bivalent enhancer; flanking active TSS	Chromatin interactive region
rs12156293	Yes	Yes	Enhancers; weak transcription; bivalent enhancer; genic enhancers	Chromatin interactive region
rs1568658	Yes	Yes	Weak transcription; enhancers; strong transcription	Chromatin interactive region
rs5994449	Yes	Yes	Weak transcription; strong transcription; ZNF genes and repeats	Chromatin interactive region
rs5753816	Yes	Yes	Weak transcription; enhancers; flanking active TSS	Chromatin interactive region