FSBC: fast string-based clustering for HT-SELEX data.

ABSTRACT:

Background

The combination of systematic evolution of ligands by exponential enrichment (SELEX) and deep sequencing is termed high-throughput (HT)-SELEX, which enables searching aptamer candidates from a massive amount of oligonucleotide sequences. A clustering method is an important procedure to identify sequence groups including aptamer candidates for evaluation with experimental analysis. In general, aptamer includes a specific target binding region, which is necessary for binding to the target molecules. The length of the target binding region varies depending on the target molecules and/or binding styles. Currently available clustering methods for HT-SELEX only estimate clusters based on the similarity of full-length sequences or limited length of motifs as target binding regi

SUBMITTER: Kato S 

PROVIDER: S-EPMC7313139 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature