This software analyzes SNPs and their impact on Transcription Factor binding by examining the effects of having two different nucleotides.
SNP score is a powerful software tool for the analysis of SNPs and their potential effects on the binding of transcription factors. It is designed to provide users with a comprehensive understanding of how different nucleotides at specific positions may affect this process.
The software is composed of three main portions. The first portion involves scoring the SNPs provided by the user against a directory of position frequency matrices (.pfm files). The output is a list of the top 5 transcription factors with the largest score differences between the two SNP alleles for each SNP.
The second portion performs homology scoring for transcription factors against a set of homology sequences, which are provided as input to the software. The output results are a table containing the scores and sequences of the highest scoring transcription factors that are homologous with the inputted sequences. The homologous sequences are compared with the human SNP sequences for further analysis.
The third and final portion of SNP score involves an alignment feature. This portion takes every possible sequence of size 40 in the SNP and conducts an alignment with each sequence of size 40 in each of the homology sequences. This powerful methodology allows for a more detailed examination of the genetic factors at play. SNP score outputs this information in the same table as described above, allowing for easy analysis and comparison.
Overall, SNP score is a sophisticated software tool that provides users with an in-depth analysis of SNPs and their potential effects on transcription factor binding. With its advanced features and functionalities, SNP score represents a valuable resource for researchers, geneticists, and clinicians alike.
The software is composed of three main portions. The first portion involves scoring the SNPs provided by the user against a directory of position frequency matrices (.pfm files). The output is a list of the top 5 transcription factors with the largest score differences between the two SNP alleles for each SNP.
The second portion performs homology scoring for transcription factors against a set of homology sequences, which are provided as input to the software. The output results are a table containing the scores and sequences of the highest scoring transcription factors that are homologous with the inputted sequences. The homologous sequences are compared with the human SNP sequences for further analysis.
The third and final portion of SNP score involves an alignment feature. This portion takes every possible sequence of size 40 in the SNP and conducts an alignment with each sequence of size 40 in each of the homology sequences. This powerful methodology allows for a more detailed examination of the genetic factors at play. SNP score outputs this information in the same table as described above, allowing for easy analysis and comparison.
Overall, SNP score is a sophisticated software tool that provides users with an in-depth analysis of SNPs and their potential effects on transcription factor binding. With its advanced features and functionalities, SNP score represents a valuable resource for researchers, geneticists, and clinicians alike.
What's New
Version 1.1: N/A