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MHConstructor: a high-throughput, haplotype-informed solution to the MHC assembly challenge
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MHConstructor: a high-throughput, haplotype-informed solution to the MHC assembly challenge
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Journal Article
MHConstructor: a high-throughput, haplotype-informed solution to the MHC assembly challenge
2024
Overview
The extremely high levels of genetic polymorphism within the human major histocompatibility complex (MHC) limit the usefulness of reference-based alignment methods for sequence assembly. We incorporate a short-read, de novo assembly algorithm into a workflow for novel application to the MHC.
MHConstructor
is a containerized pipeline designed for high-throughput, haplotype-informed, reproducible assembly of both whole genome sequencing and target capture short-read data in large, population cohorts. To-date, no other self-contained tool exists for the generation of de novo MHC assemblies from short-read data.
MHConstructor
facilitates wide-spread access to high-quality, alignment-free MHC sequence analysis.
Publisher
BioMed Central,Springer Nature B.V,BMC
Subject
/ Animal Genetics and Genomics
/ Antigens
/ Biomedical and Life Sciences
/ Disease
/ Genes
/ Genomes
/ High-Throughput Nucleotide Sequencing - methods
/ Human leukocyte antigen genes
/ Humans
/ Major histocompatibility complex
/ Major Histocompatibility Complex - genetics
/ Microbial Genetics and Genomics
/ Software
