{"id":"https://openalex.org/W2980186137","doi":"https://doi.org/10.1093/bioinformatics/btz747","title":"\u03b3-TRIS: a graph-algorithm for comprehensive identification of vector genomic insertion sites","display_name":"\u03b3-TRIS: a graph-algorithm for comprehensive identification of vector genomic insertion sites","publication_year":2019,"publication_date":"2019-10-01","ids":{"openalex":"https://openalex.org/W2980186137","doi":"https://doi.org/10.1093/bioinformatics/btz747","mag":"2980186137","pmid":"https://pubmed.ncbi.nlm.nih.gov/31589304"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/5/1622/32793835/btz747.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/36/5/1622/32793835/btz747.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031944701","display_name":"Andrea Calabria","orcid":"https://orcid.org/0000-0003-3515-3384"},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Andrea Calabria","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy"],"raw_orcid":"https://orcid.org/0000-0003-3515-3384","affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080398207","display_name":"Stefano Beretta","orcid":"https://orcid.org/0000-0003-4375-004X"},"institutions":[{"id":"https://openalex.org/I4210154278","display_name":"Institute of Biomedical Technologies","ror":"https://ror.org/04ehykb85","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Beretta","raw_affiliation_strings":["National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy","Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy","institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026770450","display_name":"Ivan Merelli","orcid":"https://orcid.org/0000-0003-3587-3680"},"institutions":[{"id":"https://openalex.org/I4210154278","display_name":"Institute of Biomedical Technologies","ror":"https://ror.org/04ehykb85","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Ivan Merelli","raw_affiliation_strings":["National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy","institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033693548","display_name":"Giulio Spinozzi","orcid":"https://orcid.org/0000-0002-4220-2474"},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]},{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giulio Spinozzi","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]},{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074926088","display_name":"Stefano Brasca","orcid":null},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Brasca","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079127373","display_name":"Yuri Pirola","orcid":"https://orcid.org/0000-0002-8479-7592"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Yuri Pirola","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014403156","display_name":"Fabrizio Benedicenti","orcid":"https://orcid.org/0000-0002-6378-125X"},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Fabrizio Benedicenti","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009057517","display_name":"Erika Tenderini","orcid":"https://orcid.org/0000-0002-4073-8259"},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Erika Tenderini","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038691764","display_name":"Paola Bonizzoni","orcid":"https://orcid.org/0000-0001-7289-4988"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paola Bonizzoni","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano Bicocca, Dipartimento di Informatica Sistemistica e Comunicazione (DiSCO) , Viale Sarca, 336, 20126, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088629765","display_name":"Luciano Milanesi","orcid":"https://orcid.org/0000-0002-1201-3939"},"institutions":[{"id":"https://openalex.org/I4210154278","display_name":"Institute of Biomedical Technologies","ror":"https://ror.org/04ehykb85","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Luciano Milanesi","raw_affiliation_strings":["National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Research Council, Institute for Biomedical Technologies , Via Fratelli Cervi, 93, 20090, Segrate, Italy","institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070225906","display_name":"Eugenio Montini","orcid":"https://orcid.org/0000-0003-1771-6067"},"institutions":[{"id":"https://openalex.org/I4210142418","display_name":"The San Raffaele Telethon Institute for Gene Therapy","ror":"https://ror.org/036jn4298","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210133214","https://openalex.org/I4210142418","https://openalex.org/I4210153126","https://openalex.org/I4210154366"]},{"id":"https://openalex.org/I4387155925","display_name":"Istituto di Ricovero e Cura a Carattere Scientifico San Raffaele","ror":"https://ror.org/006x48140","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I4387155925"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Eugenio Montini","raw_affiliation_strings":["San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Raffaele Telethon Institute for Gene Therapy (SR-Tiget) , IRCCS San Raffaele Scientific Institute, via Olgettina 60, 20132, Milan, Italy","institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5070225906"],"corresponding_institution_ids":["https://openalex.org/I4210142418","https://openalex.org/I4387155925"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.5188,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.72434402,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"36","issue":"5","first_page":"1622","last_page":"1624"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10613","display_name":"Virus-based gene therapy research","score":0.6682999730110168,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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"}},"topics":[{"id":"https://openalex.org/T10613","display_name":"Virus-based gene therapy research","score":0.6682999730110168,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10878","display_name":"CRISPR and Genetic Engineering","score":0.08349999785423279,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.07599999755620956,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.7212733030319214},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5509209632873535},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5413056015968323},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4795348644256592},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.47454604506492615},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.453762948513031},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.43908724188804626},{"id":"https://openalex.org/keywords/tris","display_name":"Tris","score":0.4159899353981018},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3280794024467468},{"id":"https://openalex.org/keywords/molecular-biology","display_name":"Molecular biology","score":0.18963146209716797}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7212733030319214},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5509209632873535},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5413056015968323},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4795348644256592},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.47454604506492615},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.453762948513031},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.43908724188804626},{"id":"https://openalex.org/C2781014771","wikidata":"https://www.wikidata.org/wiki/Q413961","display_name":"Tris","level":2,"score":0.4159899353981018},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3280794024467468},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.18963146209716797},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base 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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btz747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/5/1622/32793835/btz747.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:31589304","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31589304","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:boa.unimib.it:10281/265940","is_oa":true,"landing_page_url":"http://hdl.handle.net/10281/265940","pdf_url":null,"source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7703754","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7703754","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/5/1622/32793835/btz747.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":[{"display_name":"Life in Land","score":0.41999998688697815,"id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G6176977924","display_name":null,"funder_award_id":"TGT16B01","funder_id":"https://openalex.org/F4320321179","funder_display_name":"Fondazione Telethon"},{"id":"https://openalex.org/G7939956641","display_name":null,"funder_award_id":"TGT16B03","funder_id":"https://openalex.org/F4320321179","funder_display_name":"Fondazione Telethon"},{"id":"https://openalex.org/G8381855820","display_name":null,"funder_award_id":"TGT11D1","funder_id":"https://openalex.org/F4320321179","funder_display_name":"Fondazione Telethon"}],"funders":[{"id":"https://openalex.org/F4320321179","display_name":"Fondazione Telethon","ror":"https://ror.org/04xraxn18"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2980186137.pdf"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1902159756","https://openalex.org/W2064416623","https://openalex.org/W2089319449","https://openalex.org/W2096252688","https://openalex.org/W2114538357","https://openalex.org/W2124351063","https://openalex.org/W2169033726","https://openalex.org/W2562817659","https://openalex.org/W2566412048","https://openalex.org/W2566544067","https://openalex.org/W2770876878"],"related_works":["https://openalex.org/W4255150919","https://openalex.org/W2747583571","https://openalex.org/W2006605582","https://openalex.org/W1981567094","https://openalex.org/W1978266997","https://openalex.org/W2415908279","https://openalex.org/W2014192540","https://openalex.org/W4246004035","https://openalex.org/W2010299993","https://openalex.org/W2002782219"],"abstract_inverted_index":{"SUMMARY:":[0],"Retroviruses":[1],"and":[2,14,26,82,89,130],"their":[3,18],"vector":[4],"derivatives":[5],"integrate":[6],"semi-randomly":[7],"in":[8,42,58,66,113,127],"the":[9,29,32,37,52,73,87],"genome":[10],"of":[11,28,39,54,63,72,92],"host":[12,74],"cells":[13,57],"are":[15,83,143],"inherited":[16],"by":[17],"progeny":[19],"as":[20],"stable":[21],"genetic":[22],"marks.":[23],"The":[24],"retrieval":[25],"mapping":[27],"sequences":[30],"flanking":[31],"virus-host":[33],"DNA":[34],"junctions":[35],"allows":[36],"identification":[38],"insertion":[40,108],"sites":[41,109],"gene":[43],"therapy":[44],"or":[45,69],"virally":[46],"infected":[47],"patients,":[48],"essential":[49],"for":[50,106],"monitoring":[51],"evolution":[53],"genetically":[55],"modified":[56],"vivo.":[59],"However,":[60],"since":[61],"\u223c30%":[62],"insertions":[64],"land":[65],"low":[67,114],"complexity":[68,115],"repetitive":[70],"regions":[71],"cell":[75],"genome,":[76],"they":[77],"cannot":[78],"be":[79],"correctly":[80],"assigned":[81],"currently":[84],"discarded,":[85],"limiting":[86],"accuracy":[88],"predictive":[90],"power":[91],"clonal":[93,128],"tracking":[94],"studies.":[95],"Here,":[96],"we":[97,124],"present":[98],"\u03b3-TRIS,":[99],"a":[100],"new":[101],"graph-based":[102],"genome-free":[103],"alignment":[104],"tool":[105],"identifying":[107],"even":[110],"if":[111],"embedded":[112],"regions.":[116],"By":[117],"using":[118],"\u03b3-TRIS":[119],"to":[120],"reanalyze":[121],"clinical":[122],"studies,":[123],"observed":[125],"improvements":[126],"quantification":[129],"tracking.":[131],"AVAILABILITY":[132],"AND":[133],"IMPLEMENTATION:":[134],"Source":[135],"code":[136],"at":[137,145],"https://bitbucket.org/bereste/g-tris.":[138],"SUPPLEMENTARY":[139],"INFORMATION:":[140],"Supplementary":[141],"data":[142],"available":[144],"Bioinformatics":[146],"online.":[147]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":8},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2}],"updated_date":"2026-06-18T08:10:14.011955","created_date":"2025-10-10T00:00:00"}
