Sequence Liability Check

Overview

This tool checks a TCR or antibody sequence for any sequence liability motifs.

Inputs

• Protein sequence/FASTA file path (single or paired chain antibody)

• Whether to repair the sequence (true) or just check for liabilities (false) - default false

• Remove glycostation sites (true) or not (false) - default true

• Remove deamination hotspots (true) or not (false) - default true

• Remove isomerization motifs (true) or not (false) - default true

Outputs

• The output of EMLy liabilities tool (data about check performed)

• If detected unpaired cysteines, additional glycostation motif liabilities, problematic asparagine or glutamine residues

Description

Analyse a TCR or antibody sequence, identify and remove sequence liability motifs based on pre defined criteria. The data srecieved as input is sent to EMLy's API which identifies parental germline(s) and compares sequences against this reference, removing liabilities based on predefined criteria. Currently, it supports QC check of certain positions necessary, identification and removal of glycostation sites, identification of isomerisation sites. It is important to precisely define the sequence and structures of an antibody to avoid a reduction in the stability and efficacy of an antibody - removing sequence liabilities is the best way to avoid this. ( https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1011881

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