{"id":"https://openalex.org/W3089965518","doi":"https://doi.org/10.1186/s12859-020-03669-1","title":"TRIP - T cell receptor/immunoglobulin profiler","display_name":"TRIP - T cell receptor/immunoglobulin profiler","publication_year":2020,"publication_date":"2020-09-29","ids":{"openalex":"https://openalex.org/W3089965518","doi":"https://doi.org/10.1186/s12859-020-03669-1","mag":"3089965518","pmid":"https://pubmed.ncbi.nlm.nih.gov/32993478"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03669-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03669-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03669-1","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/track/pdf/10.1186/s12859-020-03669-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048686057","display_name":"Maria Th. Kotouza","orcid":"https://orcid.org/0000-0002-5375-5410"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Maria Th. Kotouza","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, 54124, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, 54124, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085697238","display_name":"Katerina Gemenetzi","orcid":"https://orcid.org/0000-0002-1331-3925"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Katerina Gemenetzi","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039255540","display_name":"Chrysi Galigalidou","orcid":null},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Chrysi Galigalidou","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018681513","display_name":"Elisavet Vlachonikola","orcid":"https://orcid.org/0000-0003-4609-9977"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Elisavet Vlachonikola","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009135905","display_name":"Nikolaos Pechlivanis","orcid":"https://orcid.org/0000-0003-2502-612X"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Nikolaos Pechlivanis","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008694656","display_name":"Andreas Agathangelidis","orcid":"https://orcid.org/0000-0002-8467-7945"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Andreas Agathangelidis","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028913501","display_name":"Raphael Sandaltzopoulos","orcid":"https://orcid.org/0000-0002-8490-4300"},"institutions":[{"id":"https://openalex.org/I147962203","display_name":"Democritus University of Thrace","ror":"https://ror.org/03bfqnx40","country_code":"GR","type":"education","lineage":["https://openalex.org/I147962203"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Raphael Sandaltzopoulos","raw_affiliation_strings":["Department of Molecular Biology and Genetics, Democritus University of Thrace, Alexandroupolis, 68100, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Genetics, Democritus University of Thrace, Alexandroupolis, 68100, Greece","institution_ids":["https://openalex.org/I147962203"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014906615","display_name":"Pericles A. Mitkas","orcid":"https://orcid.org/0000-0003-2090-4202"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Pericles A. Mitkas","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, 54124, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, 54124, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044130307","display_name":"\u039a\u03ce\u03c3\u03c4\u03b1\u03c2 \u03a3\u03c4\u03b1\u03bc\u03b1\u03c4\u03cc\u03c0\u03bf\u03c5\u03bb\u03bf\u03c2","orcid":"https://orcid.org/0000-0001-8529-640X"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Kostas Stamatopoulos","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034892288","display_name":"Anastasia Chatzidimitriou","orcid":"https://orcid.org/0000-0002-8106-1846"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Anastasia Chatzidimitriou","raw_affiliation_strings":["Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078171708","display_name":"Fotis Psomopoulos","orcid":"https://orcid.org/0000-0002-0222-4273"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR","SE"],"is_corresponding":true,"raw_author_name":"Fotis E. Psomopoulos","raw_affiliation_strings":["Dept of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm, Sweden. fpsom@certh.gr","Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece. fpsom@certh.gr","Dept of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm, Sweden"],"raw_orcid":"https://orcid.org/0000-0002-0222-4273","affiliations":[{"raw_affiliation_string":"Dept of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm, Sweden. fpsom@certh.gr","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, 57001, Greece. fpsom@certh.gr","institution_ids":["https://openalex.org/I4210134249"]},{"raw_affiliation_string":"Dept of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"last","author":{"id":null,"display_name":"on behalf of the Hellenic Precision Medicine Network in Oncology","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"on behalf of the Hellenic Precision Medicine Network in Oncology","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5078171708"],"corresponding_institution_ids":["https://openalex.org/I28166907","https://openalex.org/I4210134249"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":0.791,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.70073013,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"21","issue":"1","first_page":"422","last_page":"422"},"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":0.8334000110626221,"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":0.8334000110626221,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.0689999982714653,"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/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.048500001430511475,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"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/somatic-hypermutation","display_name":"Somatic hypermutation","score":0.6139870285987854},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5461318492889404},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5300963521003723},{"id":"https://openalex.org/keywords/b-cell-receptor","display_name":"B-cell receptor","score":0.5040549039840698},{"id":"https://openalex.org/keywords/antibody","display_name":"Antibody","score":0.37412816286087036},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3144819736480713},{"id":"https://openalex.org/keywords/b-cell","display_name":"B cell","score":0.31428849697113037}],"concepts":[{"id":"https://openalex.org/C128526571","wikidata":"https://www.wikidata.org/wiki/Q619302","display_name":"Somatic hypermutation","level":4,"score":0.6139870285987854},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5461318492889404},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5300963521003723},{"id":"https://openalex.org/C157695867","wikidata":"https://www.wikidata.org/wiki/Q1100474","display_name":"B-cell receptor","level":4,"score":0.5040549039840698},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.37412816286087036},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3144819736480713},{"id":"https://openalex.org/C2778453870","wikidata":"https://www.wikidata.org/wiki/Q188930","display_name":"B cell","level":3,"score":0.31428849697113037}],"mesh":[{"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":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007136","descriptor_name":"Immunoglobulins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011947","descriptor_name":"Receptors, Antigen, B-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"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":4,"locations":[{"id":"doi:10.1186/s12859-020-03669-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03669-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03669-1","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:32993478","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32993478","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7525938","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7525938","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"},{"id":"pmh:oai:doaj.org/article:efcf6ced5536475199c79896a8168685","is_oa":true,"landing_page_url":"https://doaj.org/article/efcf6ced5536475199c79896a8168685","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 21, Iss 1, Pp 1-21 (2020)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03669-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03669-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03669-1","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":0.4399999976158142,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321917","display_name":"General Secretariat for Research and Technology","ror":"https://ror.org/04yeh8h63"},{"id":"https://openalex.org/F4320322315","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691"},{"id":"https://openalex.org/F4320327859","display_name":"Hellenic Foundation for Research and Innovation","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3089965518.pdf","grobid_xml":"https://content.openalex.org/works/W3089965518.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W135571511","https://openalex.org/W1968917486","https://openalex.org/W1979781154","https://openalex.org/W2049631297","https://openalex.org/W2089041106","https://openalex.org/W2101375662","https://openalex.org/W2105195133","https://openalex.org/W2108147510","https://openalex.org/W2115206258","https://openalex.org/W2119736800","https://openalex.org/W2136169373","https://openalex.org/W2138968719","https://openalex.org/W2193060933","https://openalex.org/W2296335794","https://openalex.org/W2509312148","https://openalex.org/W2556824914","https://openalex.org/W2559115935","https://openalex.org/W2665058211","https://openalex.org/W2738867580","https://openalex.org/W2807497370","https://openalex.org/W2908619345","https://openalex.org/W2910250972","https://openalex.org/W2914687646","https://openalex.org/W2951670062","https://openalex.org/W2986512100","https://openalex.org/W3038448882"],"related_works":["https://openalex.org/W2048365604","https://openalex.org/W4200242693","https://openalex.org/W2165225696","https://openalex.org/W2887124376","https://openalex.org/W2901538669","https://openalex.org/W2951406234","https://openalex.org/W2749266189","https://openalex.org/W2017896543","https://openalex.org/W2887833180","https://openalex.org/W2622555143"],"abstract_inverted_index":{"BACKGROUND:":[0],"Antigen":[1],"receptors":[2,98],"are":[3],"characterized":[4],"by":[5,25,195],"an":[6,41],"extreme":[7],"diversity":[8,79],"of":[9,22,48,52,64,94,109,130,143,152,167,186],"specificities,":[10],"which":[11],"poses":[12],"major":[13],"computational":[14],"and":[15,81,89,92,100,107,141,161,268,276],"analytical":[16,257],"challenges,":[17],"particularly":[18],"in":[19,58,124,135],"the":[20,38,46,49,53,110,114,139,144,163,168,178,187,192,196,201,209,220,224,232,246,279],"era":[21],"high-throughput":[23],"immunoprofiling":[24],"next":[26],"generation":[27],"sequencing":[28],"(NGS).":[29],"The":[30,147,184],"T":[31,96],"cell":[32,97,102],"Receptor/Immunoglobulin":[33],"Profiler":[34],"(TRIP)":[35],"tool":[36,169,188],"offers":[37],"opportunity":[39],"for":[40,173,271],"in-depth":[42],"analysis":[43,275],"based":[44],"on":[45,208,245,259],"processing":[47],"output":[50],"files":[51],"IMGT/HighV-Quest":[54],"tool,":[55],"a":[56,62,120,150,204,252,283],"standard":[57],"NGS":[59],"immunoprofiling,":[60],"through":[61,177],"number":[63,151],"interoperable":[65],"modules.":[66],"These":[67],"provide":[68],"detailed":[69],"information":[70],"about":[71,235],"antigen":[72,260],"receptor":[73,103,261],"gene":[74,84,262],"rearrangements,":[75],"including":[76],"variable":[77],"(V),":[78],"(D)":[80],"joining":[82],"(J)":[83],"usage,":[85],"CDR3":[86],"amino":[87],"acid":[88],"nucleotide":[90],"composition":[91],"clonality":[93],"both":[95],"(TR)":[99],"B":[101],"immunoglobulins":[104],"(BcR":[105],"IG),":[106],"characteristics":[108],"somatic":[111],"hypermutation":[112],"within":[113,231],"BcR":[115,180],"IG":[116,181],"genes.":[117],"TRIP":[118,145,198,233,250,289],"is":[119,251,266,290],"web":[121],"application":[122],"implemented":[123],"R":[125],"shiny.":[126],"RESULTS:":[127],"Two":[128],"sets":[129],"experiments":[131],"have":[132],"been":[133],"performed":[134],"order":[136],"to":[137,158,228,281,286],"evaluate":[138],"efficiency":[140],"performance":[142],"tool.":[146],"first":[148],"used":[149,207],"synthetic":[153],"datasets,":[154],"ranging":[155],"from":[156,203],"250k":[157],"1M":[159,174],"sequences,":[160],"established":[162],"linear":[164],"response":[165],"time":[166],"(about":[170],"6":[171],"h":[172],"sequences":[175],"processed":[176],"entire":[179],"data":[182,272],"pipeline).":[183],"reproducibility":[185],"was":[189],"tested":[190],"comparing":[191],"results":[193,202],"produced":[194],"main":[197],"workflow":[199],"with":[200,242],"previous":[205],"pipeline":[206,284],"Galaxy":[210],"platform.":[211],"As":[212],"expected,":[213],"no":[214,243],"significant":[215],"differences":[216],"were":[217,239],"noted":[218],"between":[219],"two":[221],"tools;":[222],"although":[223],"preselection":[225],"process":[226],"seems":[227],"be":[229],"stricter":[230],"pipeline,":[234],"0.1%":[236],"more":[237],"rearrangements":[238],"filtered":[240],"out,":[241],"impact":[244],"final":[247],"results.":[248],"CONCLUSIONS:":[249],"software":[253],"framework":[254],"that":[255],"provides":[256],"services":[258],"sequence":[263],"data.":[264],"It":[265],"accurate":[267],"contains":[269],"functions":[270],"wrangling,":[273],"cleaning,":[274],"visualization,":[277],"enabling":[278],"user":[280],"build":[282],"tailored":[285],"their":[287],"needs.":[288],"publicly":[291],"available":[292],"at":[293],"https://bio.tools/TRIP_-_T-cell_Receptor_Immunoglobulin_Profiler":[294],".":[295]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
