Over the past few years, we have developed bioinformatic tools to analyze next-generation sequencing data. Below is a sampling of some of these tools:
VADT This program has been developed in our laboratory to streamline the entire allelic expression (AE) analysis process into one self-contained user-friendly program.
FastqBLAST This program takes a sample of sequences from a fastq file, trims the low quality ends, BLASTs them, fetches additional info from NCBI, and produces a tabular report.
Tomlinson MJ 4th, Polson SW, Qiu J, Lake JA, Lee W, Abasht B. Investigation of allele specific expression in various tissues of broiler chickens using the detection tool VADT. Sci Rep. 2021 Feb 17;11(1):3968. PubMed Central PMCID: PMC7889858.