Venomix: a simple bioinformatic pipeline for identifying and characterizing toxin gene candidates from transcriptomic data.

ABSTRACT: The advent of next-generation sequencing has resulted in transcriptome-based approaches to investigate functionally significant biological components in a variety of non-model organism. This has resulted in the area of "venomics": a rapidly growing field using combined transcriptomic and proteomic datasets to characterize toxin diversity in a variety of venomous taxa. Ultimately, the transcriptomic portion of these analyses follows very similar pathways after transcriptome assembly often including candidate toxin identification using BLAST, expression level screening, protein sequence alignment, gene tree reconstruction, and characterization of potential toxin function. Here we describe the Python package Venomix, which streamlines these processes using common bioinformatic tools along wit

SUBMITTER: Macrander J 

PROVIDER: S-EPMC6074769 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature