{"id":"https://openalex.org/W2946835482","doi":"https://doi.org/10.1186/s12859-019-2853-y","title":"Capturing the differences between humoral immunity in the normal and tumor environments from repertoire-seq of B-cell receptors using supervised machine learning","display_name":"Capturing the differences between humoral immunity in the normal and tumor environments from repertoire-seq of B-cell receptors using supervised machine learning","publication_year":2019,"publication_date":"2019-05-28","ids":{"openalex":"https://openalex.org/W2946835482","doi":"https://doi.org/10.1186/s12859-019-2853-y","mag":"2946835482","pmid":"https://pubmed.ncbi.nlm.nih.gov/31138102"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-2853-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2853-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2853-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2853-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049301012","display_name":"Hiroki Konishi","orcid":"https://orcid.org/0000-0003-0286-8607"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroki Konishi","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","Institute of Medical Science, Health Intelligence Center, The University of Tokyo, Tokyo, 108-8639, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Institute of Medical Science, Health Intelligence Center, The University of Tokyo, Tokyo, 108-8639, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056846884","display_name":"Daisuke Komura","orcid":"https://orcid.org/0000-0002-0038-728X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Daisuke Komura","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074010306","display_name":"Hiroto Katoh","orcid":"https://orcid.org/0000-0001-9440-728X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroto Katoh","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024266445","display_name":"Shinichiro Atsumi","orcid":"https://orcid.org/0000-0002-7511-1405"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shinichiro Atsumi","raw_affiliation_strings":["Department of Gastrointestinal Surgery, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Gastrointestinal Surgery, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002906975","display_name":"Hirotomo Koda","orcid":null},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hirotomo Koda","raw_affiliation_strings":["Department of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005294649","display_name":"Asami Yamamoto","orcid":null},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Asami Yamamoto","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025499666","display_name":"Yasuyuki Seto","orcid":"https://orcid.org/0000-0002-6953-8752"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yasuyuki Seto","raw_affiliation_strings":["Department of Gastrointestinal Surgery, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Gastrointestinal Surgery, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005708651","display_name":"Masashi Fukayama","orcid":"https://orcid.org/0000-0002-0460-064X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Masashi Fukayama","raw_affiliation_strings":["Department of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078146127","display_name":"Rui Yamaguchi","orcid":"https://orcid.org/0000-0003-1224-227X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Rui Yamaguchi","raw_affiliation_strings":["Institute of Medical Science, Human Genome Center, The University of Tokyo, Tokyo, 108-8639, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Medical Science, Human Genome Center, The University of Tokyo, Tokyo, 108-8639, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090788230","display_name":"Seiya Imoto","orcid":"https://orcid.org/0000-0002-2989-308X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Seiya Imoto","raw_affiliation_strings":["Institute of Medical Science, Health Intelligence Center, The University of Tokyo, Tokyo, 108-8639, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Medical Science, Health Intelligence Center, The University of Tokyo, Tokyo, 108-8639, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049613195","display_name":"Shumpei Ishikawa","orcid":"https://orcid.org/0000-0003-4392-090X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Shumpei Ishikawa","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan. ishum-prm@m.u-tokyo.ac.jp","Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan. ishum-prm@m.u-tokyo.ac.jp","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5049613195"],"corresponding_institution_ids":["https://openalex.org/I74801974"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.8268,"has_fulltext":true,"cited_by_count":30,"citation_normalized_percentile":{"value":0.86933279,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"20","issue":"1","first_page":"267","last_page":"267"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.301800012588501,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.301800012588501,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.29339998960494995,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10580","display_name":"Immunotherapy and Immune Responses","score":0.1728000044822693,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/repertoire","display_name":"Repertoire","score":0.796985387802124},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6118714809417725},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.5763382315635681},{"id":"https://openalex.org/keywords/humoral-immunity","display_name":"Humoral immunity","score":0.5677711367607117},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5657252073287964},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5550956130027771},{"id":"https://openalex.org/keywords/immunity","display_name":"Immunity","score":0.4618126153945923},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.4475984573364258},{"id":"https://openalex.org/keywords/immune-receptor","display_name":"Immune receptor","score":0.4398725926876068},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.3837195634841919},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32041144371032715},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2221614420413971},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.18924292922019958},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.11553707718849182}],"concepts":[{"id":"https://openalex.org/C2778473898","wikidata":"https://www.wikidata.org/wiki/Q2145110","display_name":"Repertoire","level":2,"score":0.796985387802124},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6118714809417725},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.5763382315635681},{"id":"https://openalex.org/C2776548049","wikidata":"https://www.wikidata.org/wiki/Q1142875","display_name":"Humoral immunity","level":3,"score":0.5677711367607117},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5657252073287964},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5550956130027771},{"id":"https://openalex.org/C2779341262","wikidata":"https://www.wikidata.org/wiki/Q182581","display_name":"Immunity","level":3,"score":0.4618126153945923},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.4475984573364258},{"id":"https://openalex.org/C103474210","wikidata":"https://www.wikidata.org/wiki/Q142851","display_name":"Immune receptor","level":3,"score":0.4398725926876068},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.3837195634841919},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32041144371032715},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2221614420413971},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.18924292922019958},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11553707718849182},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","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":"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":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022801","descriptor_name":"Complementarity Determining Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022801","descriptor_name":"Complementarity Determining Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022801","descriptor_name":"Complementarity Determining Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022801","descriptor_name":"Complementarity Determining Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056724","descriptor_name":"Immunity, Humoral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056724","descriptor_name":"Immunity, Humoral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056724","descriptor_name":"Immunity, Humoral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056724","descriptor_name":"Immunity, Humoral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-019-2853-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2853-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2853-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31138102","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31138102","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:0a6b01907fb346a983def02a20fe0b7b","is_oa":true,"landing_page_url":"https://doaj.org/article/0a6b01907fb346a983def02a20fe0b7b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss 1, Pp 1-11 (2019)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6537402","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6537402","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-2853-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2853-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2853-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6800000071525574,"display_name":"Reduced inequalities","id":"https://metadata.un.org/sdg/10"}],"awards":[{"id":"https://openalex.org/G2699719810","display_name":null,"funder_award_id":"JP18am0301011","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G6181614274","display_name":null,"funder_award_id":"JP18cm010653","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G8201358414","display_name":null,"funder_award_id":"JP17cm0106514","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G8796030675","display_name":null,"funder_award_id":"JP18ak0101096","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"}],"funders":[{"id":"https://openalex.org/F4320311405","display_name":"Japan Agency for Medical Research and Development","ror":"https://ror.org/004rtk039"},{"id":"https://openalex.org/F4320322832","display_name":"University of Tokyo","ror":"https://ror.org/057zh3y96"},{"id":"https://openalex.org/F4320336716","display_name":"Institute of Medical Science, University of Tokyo","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2946835482.pdf","grobid_xml":"https://content.openalex.org/works/W2946835482.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1511659675","https://openalex.org/W1545131818","https://openalex.org/W1554840845","https://openalex.org/W2006617902","https://openalex.org/W2018339091","https://openalex.org/W2021117977","https://openalex.org/W2021945571","https://openalex.org/W2049491375","https://openalex.org/W2056994600","https://openalex.org/W2073355552","https://openalex.org/W2089041106","https://openalex.org/W2097998348","https://openalex.org/W2101234009","https://openalex.org/W2115821552","https://openalex.org/W2120431546","https://openalex.org/W2132983397","https://openalex.org/W2140970797","https://openalex.org/W2154276894","https://openalex.org/W2158266834","https://openalex.org/W2281282442","https://openalex.org/W2602979991","https://openalex.org/W2605177850","https://openalex.org/W2670890989","https://openalex.org/W2671261300","https://openalex.org/W2741076261","https://openalex.org/W2751843937","https://openalex.org/W2911980279","https://openalex.org/W4285719527","https://openalex.org/W4295202959"],"related_works":["https://openalex.org/W570146172","https://openalex.org/W2361550127","https://openalex.org/W1956532753","https://openalex.org/W2379632715","https://openalex.org/W3147235795","https://openalex.org/W2357441888","https://openalex.org/W2390106286","https://openalex.org/W2112819617","https://openalex.org/W1982065522","https://openalex.org/W2354061489"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,117,205],"recent":[2],"success":[3],"of":[4,34,61,74,91,96,119,127,149,154,235,253,274],"immunotherapy":[5],"in":[6,13,21,27,44,50,110,114,130,133,171,265],"treating":[7],"tumors":[8],"has":[9],"attracted":[10],"increasing":[11],"interest":[12],"research":[14],"related":[15],"to":[16,106,123,146,175,225,232,282],"the":[17,22,32,45,59,72,81,88,94,125,249,272,279],"adaptive":[18],"immune":[19],"system":[20],"tumor":[23,46,51,84,131,162,183,214,241,268,289],"microenvironment.":[24,47],"Recent":[25],"advances":[26],"next-generation":[28],"sequencing":[29,33],"technology":[30],"enabled":[31],"whole":[35],"T-cell":[36],"receptors":[37,41],"(TCRs)":[38],"and":[39,66,83,93,132,161,213,267,290,297],"B-cell":[40],"(BCRs)/immunoglobulins":[42],"(Igs)":[43],"Since":[48],"BCRs/Igs":[49,92,129,155],"tissues":[52,292,300],"have":[53,261,293],"high":[54,89],"affinities":[55],"for":[56],"tumor-specific":[57],"antigens,":[58],"patterns":[60],"their":[62,217],"amino":[63],"acid":[64],"sequences":[65,98,112,148,153,179,210,237,286],"other":[67],"sequence-independent":[68],"features":[69,191,264],"such":[70,108],"as":[71,194,196],"number":[73],"somatic":[75],"hypermutations":[76],"(SHMs)":[77],"may":[78],"differ":[79],"between":[80,211],"normal":[82,134,160,181,212,239,266,291],"microenvironments.":[85],"However,":[86],"given":[87],"diversity":[90],"rarity":[95],"recurrent":[97],"among":[99],"individuals,":[100],"it":[101],"is":[102,278],"far":[103],"more":[104],"difficult":[105],"capture":[107],"differences":[109,139],"BCR/Ig":[111,178,209,228,236,259,285,306],"than":[113],"TCR":[115],"sequences.":[116],"aim":[118],"this":[120,277],"study":[121,281],"was":[122,255],"explore":[124],"possibility":[126],"discriminating":[128],"tissues,":[135],"by":[136,220],"capturing":[137],"these":[138,203,299],"using":[140,189,221,305],"supervised":[141],"machine":[142,186,199],"learning":[143,187],"methods":[144],"applied":[145],"RNA":[147,152],"BCRs/Igs.":[150],"RESULTS:":[151],"were":[156,173,192],"obtained":[157,170],"from":[158,164,288],"matched":[159],"specimens":[163],"90":[165],"gastric":[166],"cancer":[167],"patients.":[168],"BCR/Ig-features":[169],"Rep-Seq":[172],"used":[174],"classify":[176,226,233],"individual":[177,227],"into":[180,238],"or":[182,240],"classes.":[184,242],"Different":[185],"models":[188],"various":[190],"constructed":[193],"well":[195],"gradient":[197],"boosting":[198],"(GBM)":[200],"classifier":[201],"combining":[202],"models.":[204],"results":[206],"demonstrated":[207],"that":[208,258,284,298],"microenvironments":[215],"exhibit":[216],"differences.":[218],"Next,":[219],"a":[222,244],"GBM":[223],"trained":[224],"sequences,":[229],"we":[230],"tried":[231],"sets":[234],"As":[243],"result,":[245],"an":[246],"area":[247],"under":[248],"curve":[250],"(AUC)":[251],"value":[252],"0.826":[254],"achieved,":[256],"suggesting":[257],"repertoires":[260],"distinct":[262,295],"sequence-level":[263],"tissues.":[269],"CONCLUSIONS:":[270],"To":[271],"best":[273],"our":[275],"knowledge,":[276],"first":[280],"show":[283],"derived":[287],"globally":[294],"patterns,":[296],"can":[301],"be":[302],"effectively":[303],"differentiated":[304],"repertoires.":[307]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}