WebAug 20, 2024 · RaptRanker analyzes HT-SELEX data by evaluating the nucleotide sequence and secondary structure simultaneously, and by ranking according to scores reflecting local structure and sequence frequencies. To evaluate the performance of RaptRanker, we performed two new HT-SELEX experiments, and evaluated binding … WebMar 17, 2015 · The HT-SELEX data also generally yield somewhat longer profiles (average width of 12.7 bp vs 10.7 bp), particularly in cases where TFs bind as dimers (e.g., nuclear receptors). We and others have shown earlier that inclusion of dimeric sites and the extended flanking specificity improve prediction of in vivo occupied sites ...
Novel analysis of HT-SELEX data elucidates the role …
WebJun 24, 2024 · HT-SELEX sequence data are grouped into different clusters according to cluster ranking. Sequences with a high frequency from high-ranked clusters are synthesized and evaluated for binding ... WebMar 15, 2016 · Analyzing HT-SELEX data with the Galaxy Project tools--A web based bioinformatics platform for biomedical research. The development of DNA and RNA … cosmic yoga guided meditation
Methods for SELEX and HT-SELEX Data Analysis
WebNational Center for Biotechnology Information WebAptaTools A Comprehensive in-silico Suite for the Identification and Analysis of Aptamers from HT-SELEX Data. Revolutionizing the traditional Systematic Evolution of Ligands by EXponential Enrichment (SELEX), the High Throughput SELEX (HT-SELEX) has become the method of choice for the identification of aptamers - synthetic, single-stranded … WebApr 13, 2015 · HT SELEX can generate billions of data points, and a full utilization of these data calls for advanced computational analyses. However even the key step in data analysis—clustering the complete aptamer pool based on sequence similarity—could not be performed in reasonable time (up to two days for one million sequences) using classical ... breadth search java