{"doi":"10.1186/s13059-024-03412-6","title":"MHConstructor: a high-throughput, haplotype-informed solution to the MHC assembly challenge","abstract":"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.","journal":"Genome biology","year":2024,"id":504844,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.952,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2024-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1356024,"name":"Rayo Suseno","orcid":null,"position":1,"is_corresponding":false},{"id":1017106,"name":"Kerry Kizer","orcid":null,"position":2,"is_corresponding":false},{"id":428113,"name":"Jacqueline P. Williams","orcid":"0000-0002-5635-1526","position":3,"is_corresponding":false},{"id":1355714,"name":"Juliano André Boquett","orcid":"0000-0002-6437-789X","position":4,"is_corresponding":false},{"id":331934,"name":"Stacy J. Caillier","orcid":"0000-0002-0218-2077","position":5,"is_corresponding":false},{"id":19724,"name":"Nicholas R. Pollock","orcid":"0000-0003-0114-528X","position":6,"is_corresponding":false},{"id":858034,"name":"Adam Renschen","orcid":"0000-0002-8042-6823","position":7,"is_corresponding":false},{"id":95119,"name":"Adam Santaniello","orcid":"0000-0002-9816-5932","position":8,"is_corresponding":false},{"id":95157,"name":"Jorge R. Oksenberg","orcid":"0000-0002-3613-9544","position":9,"is_corresponding":false},{"id":19722,"name":"Paul J. Norman","orcid":"0000-0001-8370-7703","position":10,"is_corresponding":false},{"id":420672,"name":"Danillo G. Augusto","orcid":"0000-0001-5665-8547","position":11,"is_corresponding":false},{"id":420671,"name":"Jill A. Hollenbach","orcid":"0000-0001-6572-7962","position":12,"is_corresponding":false},{"id":369688,"name":"Kristen J. Wade","orcid":"0000-0002-0338-5028","position":0,"is_corresponding":true}],"reference_count":75,"raw_metadata":null,"created_at":"2026-07-19T02:10:43.302033Z","pmid":"39420419","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}