{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,24]],"date-time":"2026-04-24T15:15:28Z","timestamp":1777043728044,"version":"3.51.4"},"reference-count":61,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2026,3,10]],"date-time":"2026-03-10T00:00:00Z","timestamp":1773100800000},"content-version":"vor","delay-in-days":1,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Integrated Services for Infectious Disease Outbreak Research","award":["998530320"],"award-info":[{"award-number":["998530320"]}]},{"name":"Biomedical Primate Research Centre"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,4,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Accurate annotation of germline immunoglobulin (IG) and T cell receptor (TCR) loci is critical for understanding adaptive immunity.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>VDJ-Insights provides a user-friendly software package for characterizing these complex immune regions. In addition, it assesses gene segment functionality, identifies recombination signal sequences, and annotates complementarity-determining regions 1 and 2. VDJ-Insights achieved over 99% concordance with curated annotations from multiple species, outperforming existing annotation tools. When applied to 95 haplotypes from the Human Pangenome Reference Consortium, VDJ-Insights identified 652 and 275 novel IG and TCR alleles, respectively, highlighting its scalability for large immunogenetic studies.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Datasets and software package are available in the VDJ-insights repository, https:\/\/github.com\/BPRC-Bioinfo and https:\/\/doi.org\/10.5281\/zenodo.17588835. Additional intermediate datasets used and analyzed during the current study are available from the corresponding authors upon reasonable request.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btag108","type":"journal-article","created":{"date-parts":[[2026,3,3]],"date-time":"2026-03-03T12:48:57Z","timestamp":1772542137000},"source":"Crossref","is-referenced-by-count":0,"title":["VDJ-Insights: simplifying the annotation of genomic immunoglobulin and T cell receptor regions"],"prefix":"10.1093","volume":"42","author":[{"ORCID":"https:\/\/orcid.org\/0009-0005-3976-6008","authenticated-orcid":false,"given":"Susan E","family":"Ott","sequence":"first","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Giang N","family":"Le","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sayed J","family":"Mohammadi","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jesse","family":"Mittertreiner","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erica M","family":"Pasini","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ronald E","family":"Bontrop","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Natasja G","family":"de Groot","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7480-5376","authenticated-orcid":false,"given":"Jesse","family":"Bruijnesteijn","sequence":"additional","affiliation":[{"name":"Biomedical Primate Research Centre , Rijswijk 2288 GJ,","place":["The Netherlands"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2026,3,9]]},"reference":[{"key":"2026042409464188300_btag108-B1","doi-asserted-by":"publisher","first-page":"258","DOI":"10.1186\/s13059-022-02823-7","article-title":"Automated assembly scaffolding using ragtag elevates a new tomato system for high-throughput genome editing","volume":"23","author":"Alonge","year":"2022","journal-title":"Genome Biol"},{"key":"2026042409464188300_btag108-B2","doi-asserted-by":"publisher","first-page":"e1004103","DOI":"10.1371\/journal.ppat.1004103","article-title":"Molecular signatures of hemagglutinin stem-directed heterosubtypic human neutralizing antibodies against influenza a viruses","volume":"10","author":"Avnir","year":"2014","journal-title":"PLoS Pathog"},{"key":"2026042409464188300_btag108-B3","doi-asserted-by":"publisher","first-page":"20842","DOI":"10.1038\/srep20842","article-title":"IGHV1-69 polymorphism modulates anti-influenza antibody repertoires, correlates with IGHV utilization shifts and varies by ethnicity","volume":"6","author":"Avnir","year":"2016","journal-title":"Sci Rep"},{"key":"2026042409464188300_btag108-B4","doi-asserted-by":"publisher","first-page":"490","DOI":"10.1007\/s00251-004-0659-0","article-title":"Assembly and analysis of the mouse immunoglobulin kappa gene sequence","volume":"56","author":"Brekke","year":"2004","journal-title":"Immunogenetics"},{"key":"2026042409464188300_btag108-B5","doi-asserted-by":"publisher","first-page":"421","DOI":"10.1186\/1471-2105-10-421","article-title":"Blast+: architecture and applications","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinformatics"},{"key":"2026042409464188300_btag108-B6","doi-asserted-by":"publisher","first-page":"7762","DOI":"10.1093\/nar\/gkv784","article-title":"High speed BLASTN: an accelerated megablast search tool","volume":"43","author":"Chen","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"2026042409464188300_btag108-B7","doi-asserted-by":"publisher","first-page":"1153","DOI":"10.1016\/j.cell.2019.04.012","article-title":"Slow delivery immunization enhances HIV neutralizing antibody and germinal center responses via modulation of immunodominance","volume":"177","author":"Cirelli","year":"2019","journal-title":"Cell"},{"key":"2026042409464188300_btag108-B8","doi-asserted-by":"publisher","first-page":"100053","DOI":"10.1016\/j.immuno.2025.100053","article-title":"Challenges for the immunoglobulin and T cell receptor gene nomenclatures in the modern genomics era","volume":"19","author":"Collins","year":"2025","journal-title":"ImmunoInformatics"},{"key":"2026042409464188300_btag108-B9","doi-asserted-by":"publisher","first-page":"395","DOI":"10.1038\/334395a0","article-title":"T-cell antigen receptor genes and T-cell recognition","volume":"334","author":"Davis","year":"1988","journal-title":"Nature"},{"key":"2026042409464188300_btag108-B10","doi-asserted-by":"publisher","first-page":"1475003","DOI":"10.3389\/fimmu.2024.1475003","article-title":"Deciphering Gorilla gorilla gorilla immunoglobulin loci in multiple genome assemblies and enrichment of IMGT resources","volume":"15","author":"Debbagh","year":"2024","journal-title":"Front Immunol"},{"key":"2026042409464188300_btag108-B11","doi-asserted-by":"publisher","first-page":"981","DOI":"10.1016\/0092-8674(80)90089-6","article-title":"An immunoglobulin heavy chain variable region gene is generated from three segments of DNA: VH, D and JH","volume":"19","author":"Early","year":"1980","journal-title":"Cell"},{"key":"2026042409464188300_btag108-B12","doi-asserted-by":"publisher","first-page":"297","DOI":"10.1038\/s41435-024-00279-2","article-title":"Resolving haplotype variation and complex genetic architecture in the human immunoglobulin kappa chain locus in individuals of diverse ancestry","volume":"25","author":"Engelbrecht","year":"2024","journal-title":"Genes Immun"},{"key":"2026042409464188300_btag108-B13","doi-asserted-by":"publisher","first-page":"2076","DOI":"10.1101\/gr.280314.124","article-title":"Genotyping of selected germline adaptive immune system loci using short-read sequencing data","volume":"35","author":"Ford","year":"2025","journal-title":"Genome Res"},{"key":"2026042409464188300_btag108-B14","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1038\/s41435-022-00188-2","article-title":"Characterization of the immunoglobulin lambda chain locus from diverse populations reveals extensive genetic variation","volume":"24","author":"Gibson","year":"2023","journal-title":"Genes Immun"},{"key":"2026042409464188300_btag108-B15","doi-asserted-by":"publisher","first-page":"D781","DOI":"10.1093\/nar\/gkj088","article-title":"IMGT\/LIGM-DB, the IMGT comprehensive database of immunoglobulin and T cell receptor nucleotide sequences","volume":"34","author":"Giudicelli","year":"2006","journal-title":"Nucleic Acids Res"},{"key":"2026042409464188300_btag108-B16","doi-asserted-by":"publisher","first-page":"79","DOI":"10.3389\/fgene.2012.00079","article-title":"IMGT-ontology 2012","volume":"3","author":"Giudicelli","year":"2012","journal-title":"Front Genet"},{"key":"2026042409464188300_btag108-B17","doi-asserted-by":"publisher","first-page":"546","DOI":"10.1038\/icb.2009.38","article-title":"Extraction and characterization of the rhesus macaque T-cell receptor beta-chain genes","volume":"87","author":"Greenaway","year":"2009","journal-title":"Immunol Cell Biol"},{"key":"2026042409464188300_btag108-B18","doi-asserted-by":"publisher","first-page":"83","DOI":"10.1016\/j.ygeno.2017.01.005","article-title":"Improvements and impacts of GRCh38 human reference on high throughput sequencing data analysis","volume":"109","author":"Guo","year":"2017","journal-title":"Genomics"},{"key":"2026042409464188300_btag108-B19","doi-asserted-by":"publisher","first-page":"1053","DOI":"10.1101\/gad.3.7.1053","article-title":"V(D)J recombination: a functional definition of the joining signals","volume":"3","author":"Hesse","year":"1989","journal-title":"Genes Dev"},{"key":"2026042409464188300_btag108-B20","doi-asserted-by":"publisher","first-page":"368","DOI":"10.1038\/290368a0","article-title":"Human immunoglobulin kappa light-chain genes are deleted or rearranged in lambda-producing B cells","volume":"290","author":"Hieter","year":"1981","journal-title":"Nature"},{"key":"2026042409464188300_btag108-B21","doi-asserted-by":"publisher","first-page":"6726","DOI":"10.1093\/nar\/gkaa418","article-title":"Sequence-dependent dynamics of synthetic and endogenous RSSS in V(D)J recombination","volume":"48","author":"Hirokawa","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2026042409464188300_btag108-B22","doi-asserted-by":"publisher","first-page":"11696","DOI":"10.1093\/nar\/gkac1038","article-title":"An updated definition of V(D)J recombination signal sequences revealed by high-throughput recombination assays","volume":"50","author":"Hoolehan","year":"2022","journal-title":"Nucleic Acids Res"},{"key":"2026042409464188300_btag108-B23","doi-asserted-by":"publisher","first-page":"172","DOI":"10.1038\/s41435-021-00143-7","article-title":"Population matched (pm) germline allelic variants of immunoglobulin (IG) loci: relevance in infectious diseases and vaccination studies in human populations","volume":"22","author":"Khatri","year":"2021","journal-title":"Genes Immun"},{"key":"2026042409464188300_btag108-B24","doi-asserted-by":"publisher","first-page":"1333","DOI":"10.4049\/jimmunol.1102097","article-title":"The inference of phased haplotypes for the immunoglobulin H chain V region gene loci by analysis of VDJ gene rearrangements","volume":"188","author":"Kidd","year":"2012","journal-title":"J Immunol"},{"key":"2026042409464188300_btag108-B25","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with bowtie 2","volume":"9","author":"Langmead","year":"2012","journal-title":"Nat Methods"},{"key":"2026042409464188300_btag108-B26","doi-asserted-by":"publisher","first-page":"R25","DOI":"10.1186\/gb-2009-10-3-r25","article-title":"Ultrafast and memory-efficient alignment of short DNA sequences to the human genome","volume":"10","author":"Langmead","year":"2009","journal-title":"Genome Biol"},{"key":"2026042409464188300_btag108-B27","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1093\/bioinformatics\/btae144","article-title":"Digger: directed annotation of immunoglobulin and T cell receptor V, D, and J gene sequences and assemblies","volume":"40","author":"Lees","year":"2024","journal-title":"Bioinformatics"},{"key":"2026042409464188300_btag108-B28","author":"Lefranc","year":"1996"},{"key":"2026042409464188300_btag108-B29","doi-asserted-by":"publisher","first-page":"595","DOI":"10.1101\/pdb.top115","article-title":"IMGT, the international immunogenetics information system","volume":"2011","author":"Lefranc","year":"2011","journal-title":"Cold Spring Harb Protoc"},{"key":"2026042409464188300_btag108-B30","volume-title":"The Immunoglobulin Factsbook","author":"Lefranc","year":"2001"},{"key":"2026042409464188300_btag108-B31","doi-asserted-by":"publisher","first-page":"4572","DOI":"10.1093\/bioinformatics\/btab705","article-title":"New strategies to improve minimap2 alignment accuracy","volume":"37","author":"Li","year":"2021","journal-title":"Bioinformatics"},{"key":"2026042409464188300_btag108-B32","doi-asserted-by":"publisher","first-page":"312","DOI":"10.1038\/s41586-023-05896-x","article-title":"A draft human pangenome reference","volume":"617","author":"Liao","year":"2023","journal-title":"Nature"},{"key":"2026042409464188300_btag108-B33","doi-asserted-by":"publisher","first-page":"922513","DOI":"10.3389\/fimmu.2022.922513","article-title":"Profiling genes encoding the adaptive immune receptor repertoire with gAIRR suite","volume":"13","author":"Lin","year":"2022","journal-title":"Front Immunol"},{"key":"2026042409464188300_btag108-B34","doi-asserted-by":"publisher","first-page":"353","DOI":"10.1038\/s41577-021-00628-6","article-title":"Structural insights into the evolution of the RAG recombinase","volume":"22","author":"Liu","year":"2022","journal-title":"Nat Rev Immunol"},{"key":"2026042409464188300_btag108-B35","doi-asserted-by":"publisher","first-page":"4546","DOI":"10.1038\/s41467-023-40151-x","article-title":"Affinity-matured homotypic interactions induce spectrum of PfCSP structures that influence protection from malaria infection","volume":"14","author":"Martin","year":"2023","journal-title":"Nat Commun"},{"key":"2026042409464188300_btag108-B36","doi-asserted-by":"publisher","first-page":"1480","DOI":"10.1084\/jem.155.5.1480","article-title":"Chromosomal location of human kappa and lambda immunoglobulin light chain constant region genes","volume":"155","author":"McBride","year":"1982","journal-title":"J Exp Med"},{"key":"2026042409464188300_btag108-B37","doi-asserted-by":"publisher","first-page":"e20241908","DOI":"10.1084\/jem.20241908","volume-title":"J Exp Med","author":"McDaniel","year":"2025"},{"key":"2026042409464188300_btag108-B38","doi-asserted-by":"publisher","first-page":"394","DOI":"10.3390\/vaccines10030394","article-title":"IMGT\u00ae biocuration and analysis of the rhesus monkey IG loci","volume":"10","author":"Nguefack Ngoune","year":"2022","journal-title":"Vaccines"},{"key":"2026042409464188300_btag108-B39","doi-asserted-by":"publisher","first-page":"44","DOI":"10.1126\/science.abj6987","article-title":"The complete sequence of a human genome","volume":"376","author":"Nurk","year":"2022","journal-title":"Science"},{"key":"2026042409464188300_btag108-B40","doi-asserted-by":"publisher","first-page":"D1051","DOI":"10.1093\/nar\/gkz872","article-title":"Vdjbase: an adaptive immune receptor genotype and haplotype database","volume":"48","author":"Omer","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2026042409464188300_btag108-B41","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1016\/j.immuni.2022.12.005","article-title":"Immunoglobulin germline gene polymorphisms influence the function of SARS-COV-2 neutralizing antibodies","volume":"56","author":"Pushparaj","year":"2023","journal-title":"Immunity"},{"key":"2026042409464188300_btag108-B42","doi-asserted-by":"publisher","first-page":"1407","DOI":"10.3389\/fimmu.2017.01407","article-title":"Structure and diversity of the rhesus macaque immunoglobulin loci through multiple de novo genome assemblies","volume":"8","author":"Ramesh","year":"2017","journal-title":"Front Immunol"},{"key":"2026042409464188300_btag108-B43","doi-asserted-by":"publisher","first-page":"2419","DOI":"10.4049\/jimmunol.179.4.2419","article-title":"Sequence and characterization of the IG heavy chain constant and partial variable region of the mouse strain 129s1","volume":"179","author":"Retter","year":"2007","journal-title":"J Immunol"},{"key":"2026042409464188300_btag108-B44","doi-asserted-by":"publisher","first-page":"2136","DOI":"10.3389\/fimmu.2020.02136","article-title":"A novel framework for characterizing genomic haplotype diversity in the human immunoglobulin heavy chain locus","volume":"11","author":"Rodriguez","year":"2020","journal-title":"Front Immunol"},{"key":"2026042409464188300_btag108-B45","doi-asserted-by":"publisher","first-page":"4419","DOI":"10.1038\/s41467-023-40070-x","article-title":"Genetic variation in the immunoglobulin heavy chain locus shapes the human antibody repertoire","volume":"14","author":"Rodriguez","year":"2023","journal-title":"Nat Commun"},{"key":"2026042409464188300_btag108-B46","doi-asserted-by":"publisher","first-page":"e0261374","DOI":"10.1371\/journal.pone.0261374","article-title":"Limitations of lymphoblastoid cell lines for establishing genetic reference datasets in the immunoglobulin loci","volume":"16","author":"Rodriguez","year":"2021","journal-title":"PLoS One"},{"key":"2026042409464188300_btag108-B47","doi-asserted-by":"publisher","first-page":"100228","DOI":"10.1016\/j.xgen.2022.100228","article-title":"Targeted long-read sequencing facilitates phased diploid assembly and genotyping of the human T cell receptor alpha, delta, and beta loci","volume":"2","author":"Rodriguez","year":"2022","journal-title":"Cell Genom"},{"key":"2026042409464188300_btag108-B48","doi-asserted-by":"publisher","first-page":"6049","DOI":"10.1073\/pnas.1303682110","article-title":"Structural basis for HIV-1 gp120 recognition by a germ-line version of a broadly neutralizing antibody","volume":"110","author":"Scharf","year":"2013","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2026042409464188300_btag108-B49","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1038\/msb.2011.75","article-title":"Fast, scalable generation of high-quality protein multiple sequence alignments using clustal omega","volume":"7","author":"Sievers","year":"2011","journal-title":"Mol Syst Biol"},{"key":"2026042409464188300_btag108-B50","doi-asserted-by":"publisher","first-page":"1152","DOI":"10.1101\/gr.276676.122","article-title":"Gene prediction in the immunoglobulin loci","volume":"32","author":"Sirupurapu","year":"2022","journal-title":"Genome Res"},{"key":"2026042409464188300_btag108-B51","doi-asserted-by":"publisher","first-page":"2272","DOI":"10.1093\/bioinformatics\/btz921","article-title":"Logomaker: beautiful sequence logos in python","volume":"36","author":"Tareen","year":"2020","journal-title":"Bioinformatics"},{"key":"2026042409464188300_btag108-B52","doi-asserted-by":"publisher","first-page":"e953","DOI":"10.14806\/ej.26.A.953","article-title":"In silico characterisation of the gene repertoires of immunoglobulins and T cell receptors of the various inbred laboratory strains of mus musculus","volume":"26","author":"Tran","year":"2021","journal-title":"EMBnet J"},{"key":"2026042409464188300_btag108-B53","doi-asserted-by":"publisher","first-page":"355","DOI":"10.1016\/j.immuni.2020.12.018","article-title":"Rhesus and cynomolgus macaque immunoglobulin heavy-chain genotyping yields comprehensive databases of germline VDJ alleles","volume":"54","author":"Vazquez Bernat","year":"2021","journal-title":"Immunity"},{"key":"2026042409464188300_btag108-B54","doi-asserted-by":"publisher","first-page":"100059","DOI":"10.1016\/j.immuno.2025.100059","article-title":"Building immunoglobulin and t cell receptor gene databases for the future","volume":"19","author":"Watson","year":"2025","journal-title":"ImmunoInformatics"},{"key":"2026042409464188300_btag108-B55","doi-asserted-by":"publisher","first-page":"530","DOI":"10.1016\/j.ajhg.2013.03.004","article-title":"Complete haplotype sequence of the human immunoglobulin heavy-chain variable, diversity, and joining genes and characterization of allelic and copy-number variation","volume":"92","author":"Watson","year":"2013","journal-title":"Am J Hum Genet"},{"key":"2026042409464188300_btag108-B56","doi-asserted-by":"publisher","first-page":"E2083","DOI":"10.1073\/pnas.1208984109","article-title":"Structural basis for germ-line gene usage of a potent class of antibodies targeting the CD4-binding site of HIV-1 gp120","volume":"109","author":"West","year":"2012","journal-title":"Proc Natl Acad Sci"},{"key":"2026042409464188300_btag108-B57","doi-asserted-by":"publisher","first-page":"257","DOI":"10.4049\/jimmunol.167.1.257","article-title":"Unequal VH gene rearrangement frequency within the large VH7183 gene family is not due to recombination signal sequence variation, and mapping of the genes shows a bias of rearrangement based on chromosomal location","volume":"167","author":"Williams","year":"2001","journal-title":"J Immunol"},{"key":"2026042409464188300_btag108-B58","doi-asserted-by":"publisher","first-page":"2454","DOI":"10.3389\/fimmu.2019.02454","article-title":"Comparative analysis of the CDR loops of antigen receptors","volume":"10","author":"Wong","year":"2019","journal-title":"Front Immunol"},{"key":"2026042409464188300_btag108-B59","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1016\/s1074-7613(02)00515-0","article-title":"Dramatically increased rearrangement and peripheral representation of vbeta14 driven by the 3\u2019dbeta1 recombination signal sequence","volume":"18","author":"Wu","year":"2003","journal-title":"Immunity"},{"key":"2026042409464188300_btag108-B60","doi-asserted-by":"publisher","first-page":"417","DOI":"10.1007\/s00251-016-0921-2","article-title":"Cynomolgus macaque (Macaca fascicularis) immunoglobulin heavy chain locus description","volume":"68","author":"Yu","year":"2016","journal-title":"Immunogenetics"},{"key":"2026042409464188300_btag108-B61","doi-asserted-by":"publisher","first-page":"131","DOI":"10.1186\/s13059-025-03594-7","article-title":"Closeread: a tool for assessing assembly errors in immunoglobulin loci applied to vertebrate long-read genome assemblies","volume":"26","author":"Zhu","year":"2025","journal-title":"Genome Biol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btag108\/67282393\/btag108.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/42\/4\/btag108\/67282393\/btag108.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/42\/4\/btag108\/67282393\/btag108.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,4,24]],"date-time":"2026-04-24T13:46:47Z","timestamp":1777038407000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/doi\/10.1093\/bioinformatics\/btag108\/8512510"}},"subtitle":[],"editor":[{"given":"Christina","family":"Kendziorski","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2026,3,9]]},"references-count":61,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2026,4,7]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btag108","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2026,4]]},"published":{"date-parts":[[2026,3,9]]},"article-number":"btag108"}}