Abstract: Sequence alignment using evolutionary profiles is a commonly employed tool when investigating a protein. Many profile-profile scoring functions have been developed for use in such alignments ...

Abstract: Sequence alignment is a crucial tool in biological research. Alignment quality is typically assessed using scores, but these do not guarantee optimality. Estimating the optimal alignment ...

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The LocARNA package provides several tools for the structural analysis of RNA. LocARNA's main functionality is to align a set of a priori unaligned RNAs sequences and at the same time predict their ...

WitChi is an analysis and pruning tool designed to evaluate and reduce compositional bias in multiple sequence alignments (MSAs). It utilizes statistical methods, permutation tests, and parallel ...

Proteins are essential macromolecules that perform functions according to their conformational dynamics. Studying the conformational changes induced by protein mutations is the standard approach used ...

Article subjects are automatically applied from the ACS Subject Taxonomy and describe the scientific concepts and themes of the article. The development of small-molecule therapeutics against DENV may ...

This important study addresses the problem of detecting weak similarity between protein sequences, a procedure commonly used to infer homology or assign putative functions to uncharacterized proteins.

SNAP is a program that is part of a gene sequencing pipeline. It takes data from gene sequencing hardware that consists of short chunks of DNA (typically 70-300 base pairs long) called reads and ...

Aligning short-read sequences is the foundational step to most genomic and transcriptomic analyses, but not all tools perform equally, and choosing among the growing body of available tools can be ...