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. 2017 Jul 17;13(7):e1006872. doi: 10.1371/journal.pgen.1006872

Fig 4. Allele specific HIF-binding at the rs12814794 associated enhancer.

Fig 4

A) rs12814794 defines a one base pair exchange (A>G) which creates a HIF-binding motif (ACGTG). B) Allele-specific qPCR for rs12814794 from DNA fragments isolated in HIF-ChIP experiments (HIF-1α and HIF-1β) or input DNA from primary renal tubular cells (PTC, n = 4 individuals). DNA from individuals homozygous for the AA or GG genotype were used as positive controls. C) Quantification of the two different alleles (A or G) at rs12814794 in the ChIP-seq reads from HIF-1α and HIF-1β immunoprecipitations (PTC #1 Fig 3). D) Allele-specific qPCR for rs12814794 from DNA fragments isolated in FAIRE experiments or input DNA from primary renal tubular cells (PTC). DNA from individuals homozygous for the AA or GG genotype were used as positive controls. E) Quantification of the two different alleles (A or G) for rs12814794 present in reads from the FAIRE-seq experiment (see Fig 3a: FAIRE track for PTC#1) and sequencing of the input. F) Allele-specific qPCR for rs12814794 from HIF-ChIP (HIF-1α, HIF-2α and HIF-1β) experiments in RCC L13 cells. DNA from control serum immunoprecipitations or input DNA from RCC L13 was used as controls. DNA from homozygous individuals (AA or GG) were used as controls for the two genotypes.