NGlyAlign: an automated library building tool to align highly divergent HIV envelope sequences.

ABSTRACT:

Background

The high variability in envelope regions of some viruses such as HIV allow the virus to establish infection and to escape subsequent immune surveillance. This variability, as well as increasing incorporation of N-linked glycosylation sites, is fundamental to this evasion. It also creates difficulties for multiple sequence alignment methods (MSA) that provide the first step in their analysis. Existing MSA tools often fail to properly align highly variable HIV envelope sequences requiring extensive manual editing that is impractical with even a moderate number of these variable sequences.

Results

We developed an automated library building tool NGlyAlign, that organizes similar N-linked glycosylation sites as block constraints and statistically conserved global sites

SUBMITTER: Akand EH 

PROVIDER: S-EPMC7869453 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature