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On the human genome, the ABCC11 gene appears on chromosome 16 at the 46.17-25 Mb (million base-pair) mark. From the ORegAnno data taken from the UCSC Genome Browser, I was able to determine 6 significant transcription factor binding sites just ahead the ABCC11 gene. They included: TFAP2C, FOXA1, CEBPB, CTCF, CEBPA, and RBL2.
ChIP-seq data analysis was done using data gathered from JASPAR using the MACS software. Below are small portions of the excel data outputted from MACS.
Figure 1. MACS analysis of FOXA1 Transcription Factor.
Figure 2. MACS analysis of CTCF Transcription Factor (no control data)
This output file lists the chromosome number as well as where the ChIP peak begins and ends (in the human genome). It gives the length of the peak, peak height, number of tags, fold enrichment, and FDR. Of the 7 transcription factor ChIP-seq data files, these were the only two that had good output files (Figure 1 and 2). From the data sets found, there was no peak sequences that corresponded to the locations of the transcription factors listed above.
Looking at data from the Human Protein Atlas, there was high RNA expression in the breast, testis, pituitary, and prostate organs for ABCC11. The high RNA expression in the breasts can be due to the presence of the FOXA1 transcription factor binding site as it there has been some correlation between the FOXA1 and breast cancer indicative genes/proteins. As for overall protein expression, the ABCC11 protein shows equal expression in almost all organs.
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