{"id":"https://openalex.org/W3000174416","doi":"https://doi.org/10.1093/bioinformatics/btz474","title":"arcasHLA: high-resolution HLA typing from RNAseq","display_name":"arcasHLA: high-resolution HLA typing from RNAseq","publication_year":2019,"publication_date":"2019-06-03","ids":{"openalex":"https://openalex.org/W3000174416","doi":"https://doi.org/10.1093/bioinformatics/btz474","mag":"3000174416","pmid":"https://pubmed.ncbi.nlm.nih.gov/31173059"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz474","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz474","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/1/33/31813787/btz474.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/36/1/33/31813787/btz474.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040042276","display_name":"Rose Orenbuch","orcid":"https://orcid.org/0000-0002-4678-0837"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rose Orenbuch","raw_affiliation_strings":["Department of Computer Science, Columbia University , New York, NY 10027, USA","Department of Systems Biology, Columbia University , New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Columbia University , New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Department of Systems Biology, Columbia University , New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113958267","display_name":"Ioan Filip","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ioan Filip","raw_affiliation_strings":["Department of Systems Biology, Columbia University , New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Columbia University , New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060949678","display_name":"Devon Comito","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Devon Comito","raw_affiliation_strings":["Department of Environmental Health Sciences, Mailman School of Public Health , Columbia University, New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Environmental Health Sciences, Mailman School of Public Health , Columbia University, New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006605951","display_name":"Jeffrey Shaman","orcid":"https://orcid.org/0000-0002-7216-7809"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeffrey Shaman","raw_affiliation_strings":["Department of Environmental Health Sciences, Mailman School of Public Health , Columbia University, New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Environmental Health Sciences, Mailman School of Public Health , Columbia University, New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008985951","display_name":"Itsik Pe\u2019er","orcid":"https://orcid.org/0000-0002-6128-7231"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Itsik Pe\u2019er","raw_affiliation_strings":["Department of Computer Science, Columbia University , New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Columbia University , New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056128255","display_name":"Ra\u00fal Rabad\u00e1n","orcid":"https://orcid.org/0000-0001-7946-9255"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Raul Rabadan","raw_affiliation_strings":["Department of Systems Biology, Columbia University , New York, NY 10032, USA"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Columbia University , New York, NY 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5008985951","https://openalex.org/A5056128255"],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":5.0717,"has_fulltext":false,"cited_by_count":208,"citation_normalized_percentile":{"value":0.96371989,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"36","issue":"1","first_page":"33","last_page":"40"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10031","display_name":"T-cell and B-cell Immunology","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10031","display_name":"T-cell and B-cell Immunology","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10981","display_name":"Cytomegalovirus and herpesvirus research","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11316","display_name":"Mycobacterium research and diagnosis","score":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/typing","display_name":"Typing","score":0.7448785901069641},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.6893754601478577},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6169117093086243},{"id":"https://openalex.org/keywords/resolution","display_name":"Resolution (logic)","score":0.4807731509208679},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4732430875301361},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3319076597690582},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3018600344657898},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2880847752094269},{"id":"https://openalex.org/keywords/speech-recognition","display_name":"Speech recognition","score":0.12138590216636658},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.10745206475257874}],"concepts":[{"id":"https://openalex.org/C2781209916","wikidata":"https://www.wikidata.org/wiki/Q3215756","display_name":"Typing","level":2,"score":0.7448785901069641},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.6893754601478577},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6169117093086243},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.4807731509208679},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4732430875301361},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3319076597690582},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3018600344657898},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2880847752094269},{"id":"https://openalex.org/C28490314","wikidata":"https://www.wikidata.org/wiki/Q189436","display_name":"Speech recognition","level":1,"score":0.12138590216636658},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.10745206475257874}],"mesh":[{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006650","descriptor_name":"Histocompatibility Testing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D006650","descriptor_name":"Histocompatibility Testing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D006650","descriptor_name":"Histocompatibility Testing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz474","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz474","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/1/33/31813787/btz474.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31173059","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31173059","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:5915560","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6956775","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz474","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz474","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/1/33/31813787/btz474.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4389918147","display_name":null,"funder_award_id":"W911NF-16-2-0035","funder_id":"https://openalex.org/F4320332180","funder_display_name":"Defense Advanced Research Projects Agency"},{"id":"https://openalex.org/G5903918215","display_name":null,"funder_award_id":"U54CA193313","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G676086228","display_name":null,"funder_award_id":"R01-GM117591","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332180","display_name":"Defense Advanced Research Projects Agency","ror":"https://ror.org/02caytj08"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3000174416.pdf","grobid_xml":"https://content.openalex.org/works/W3000174416.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1696199194","https://openalex.org/W1994795462","https://openalex.org/W1995453338","https://openalex.org/W2008049885","https://openalex.org/W2009483826","https://openalex.org/W2018838463","https://openalex.org/W2025943989","https://openalex.org/W2031102033","https://openalex.org/W2037918327","https://openalex.org/W2043637778","https://openalex.org/W2055043387","https://openalex.org/W2056892179","https://openalex.org/W2059858676","https://openalex.org/W2065128082","https://openalex.org/W2065137093","https://openalex.org/W2067058184","https://openalex.org/W2102278945","https://openalex.org/W2112752664","https://openalex.org/W2143856741","https://openalex.org/W2150056019","https://openalex.org/W2153325555","https://openalex.org/W2157764447","https://openalex.org/W2159633664","https://openalex.org/W2160969485","https://openalex.org/W2169456326","https://openalex.org/W2214699570","https://openalex.org/W2256016639","https://openalex.org/W2323326409","https://openalex.org/W2464717012","https://openalex.org/W2517794688","https://openalex.org/W2523035172","https://openalex.org/W2605820408","https://openalex.org/W2734098379","https://openalex.org/W2760268780","https://openalex.org/W2766209631","https://openalex.org/W2774712455","https://openalex.org/W2791926234","https://openalex.org/W2868672058","https://openalex.org/W2893910912","https://openalex.org/W2914495140","https://openalex.org/W3005927141","https://openalex.org/W6752844263"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W3176169626","https://openalex.org/W1606200072","https://openalex.org/W101503009","https://openalex.org/W4283775834","https://openalex.org/W2888997879","https://openalex.org/W4212841426","https://openalex.org/W2368089815","https://openalex.org/W2394331430","https://openalex.org/W2413704448"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":41},{"year":2024,"cited_by_count":58},{"year":2023,"cited_by_count":47},{"year":2022,"cited_by_count":25},{"year":2021,"cited_by_count":19},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":5}],"updated_date":"2026-03-28T08:17:26.163206","created_date":"2025-10-10T00:00:00"}
