- Description
- An R package for screening SNPs for their potential to enhance or disrupt transcription factor binding sites. atSNP accepts as input either SNP ids or the actual coordinates of the SNPs and the alternative alleles. It uses ENCODE motifs and JASPAR motifs to evaluate the regulatory potential of the SNPs; however, it also allows user specified set of transcription factor binding sites in the form of position specific matrices. It outputs for each SNP the significance of the match to each position specific matrix with both the reference and the alternative allele and also the significance of the change in these match scores. atSNP also provides easy visualization of the SNP impact on the binding site by composite logo plots.
- Used for
- community resource