4.7 Article

ADACT: a tool for analysing (dis)similarity among nucleotide and protein sequences using minimal and relative absent words

Journal

BIOINFORMATICS
Volume 37, Issue 10, Pages 1468-1470

Publisher

OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btaa853

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Funding

  1. ICT Division, Government of the Peoples' Republic of Bangladesh

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This research focuses on developing an alignment-free framework for analyzing biological sequences and introduces the Alignment-free Dissimilarity Analysis & Comparison Tool (ADACT), which aims to simplify the workflow for researchers and practitioners in the field of bioinformatics.
Motivation: Researchers and practitioners use a number of popular sequence comparison tools that use many alignment-based techniques. Due to high time and space complexity and length-related restrictions, researchers often seek alignment-free tools. Recently, some interesting ideas, namely, Minimal Absent Words (MAW) and Relative Absent Words (RAW), have received much interest among the scientific community as distance measures that can give us alignment-free alternatives. This drives us to structure a framework for analysing biological sequences in an alignment-free manner. Results: In this application note, we present Alignment-free Dissimilarity Analysis & Comparison Tool (ADACT), a simple web-based tool that computes the analogy among sequences using a varied number of indexes through the distance matrix, species relation list and phylogenetic tree. This tool basically combines absent word (MAW or RAW) computation, dissimilarity measures, species relationship and thus brings all required software in one platform for the ease of researchers and practitioners alike in the field of bioinformatics. We have also developed a restful API.

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