{"id":"https://openalex.org/W2950570768","doi":"https://doi.org/10.1186/s12859-018-2253-8","title":"HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads","display_name":"HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads","publication_year":2018,"publication_date":"2018-07-03","ids":{"openalex":"https://openalex.org/W2950570768","doi":"https://doi.org/10.1186/s12859-018-2253-8","mag":"2950570768","pmid":"https://pubmed.ncbi.nlm.nih.gov/29970002"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2253-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2253-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2253-8","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/s12859-018-2253-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080398207","display_name":"Stefano Beretta","orcid":"https://orcid.org/0000-0003-4375-004X"},"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":true,"raw_author_name":"Stefano Beretta","raw_affiliation_strings":["Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026228482","display_name":"Murray Patterson","orcid":"https://orcid.org/0000-0002-4329-0234"},"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":"Murray D. Patterson","raw_affiliation_strings":["Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy. murray.patterson@unimib.it","Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy. murray.patterson@unimib.it","institution_ids":["https://openalex.org/I66752286"]},{"raw_affiliation_string":"Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015317678","display_name":"Simone Zaccaria","orcid":"https://orcid.org/0000-0002-5265-7392"},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simone Zaccaria","raw_affiliation_strings":["Department of Computer Science, Princeton University, Princeton, New Jersey, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Princeton University, Princeton, New Jersey, USA","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059679442","display_name":"Gianluca Della Vedova","orcid":"https://orcid.org/0000-0001-5584-3089"},"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":"Gianluca Della Vedova","raw_affiliation_strings":["Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"last","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":["Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems, and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5080398207"],"corresponding_institution_ids":["https://openalex.org/I66752286"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.4654,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.6467968,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"19","issue":"1","first_page":"252","last_page":"252"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9939000010490417,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9939000010490417,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9915000200271606,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9894999861717224,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/haplotype","display_name":"Haplotype","score":0.787507176399231},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5452365279197693},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.543472409248352},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47362369298934937},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.41935813426971436},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3564840853214264},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.142053484916687},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.11767324805259705}],"concepts":[{"id":"https://openalex.org/C197754878","wikidata":"https://www.wikidata.org/wiki/Q80711","display_name":"Haplotype","level":4,"score":0.787507176399231},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5452365279197693},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.543472409248352},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47362369298934937},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.41935813426971436},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3564840853214264},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.142053484916687},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.11767324805259705},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"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":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-018-2253-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2253-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2253-8","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:29970002","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29970002","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:boa.unimib.it:10281/204865","is_oa":true,"landing_page_url":"http://hdl.handle.net/10281/204865","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-018-2253-8.pdf","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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:b98da28cb41a472cbd2c46df59744ea2","is_oa":true,"landing_page_url":"https://doaj.org/article/b98da28cb41a472cbd2c46df59744ea2","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss 1, Pp 1-19 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4989534","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6029272","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2253-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2253-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2253-8","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":[{"display_name":"Partnerships for the goals","score":0.46000000834465027,"id":"https://metadata.un.org/sdg/17"}],"awards":[{"id":"https://openalex.org/G8054743335","display_name":null,"funder_award_id":"2013?0955","funder_id":"https://openalex.org/F4320321499","funder_display_name":"Fondazione Cariplo"},{"id":"https://openalex.org/G8411802876","display_name":null,"funder_award_id":"2013-0955","funder_id":"https://openalex.org/F4320321499","funder_display_name":"Fondazione Cariplo"}],"funders":[{"id":"https://openalex.org/F4320321499","display_name":"Fondazione Cariplo","ror":"https://ror.org/01gb56c55"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2950570768.pdf","grobid_xml":"https://content.openalex.org/works/W2950570768.grobid-xml"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W134178062","https://openalex.org/W1504581534","https://openalex.org/W1771331356","https://openalex.org/W1953000621","https://openalex.org/W1962960380","https://openalex.org/W1980887908","https://openalex.org/W2007772656","https://openalex.org/W2009441527","https://openalex.org/W2022316530","https://openalex.org/W2032033112","https://openalex.org/W2036815225","https://openalex.org/W2043685803","https://openalex.org/W2093529889","https://openalex.org/W2100004318","https://openalex.org/W2104360069","https://openalex.org/W2104881193","https://openalex.org/W2110772696","https://openalex.org/W2114299767","https://openalex.org/W2117400776","https://openalex.org/W2120126913","https://openalex.org/W2121729186","https://openalex.org/W2122767081","https://openalex.org/W2124734937","https://openalex.org/W2129326667","https://openalex.org/W2141978199","https://openalex.org/W2147733682","https://openalex.org/W2149673725","https://openalex.org/W2150949792","https://openalex.org/W2152605077","https://openalex.org/W2164442437","https://openalex.org/W2164971951","https://openalex.org/W2168142506","https://openalex.org/W2195724570","https://openalex.org/W2233072870","https://openalex.org/W2341558890","https://openalex.org/W2342563361","https://openalex.org/W2346085630","https://openalex.org/W2415473920","https://openalex.org/W2420821447","https://openalex.org/W2472873926","https://openalex.org/W2510600404","https://openalex.org/W2529241974","https://openalex.org/W2535141078","https://openalex.org/W2546519000","https://openalex.org/W2550586733","https://openalex.org/W2560383108","https://openalex.org/W2756260525","https://openalex.org/W2756518443","https://openalex.org/W2794879929","https://openalex.org/W2949062400","https://openalex.org/W2951149781","https://openalex.org/W2951561991","https://openalex.org/W2952870794","https://openalex.org/W3098304617","https://openalex.org/W4231539689"],"related_works":["https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1965396974","https://openalex.org/W2038331681","https://openalex.org/W1998686087","https://openalex.org/W1981169569","https://openalex.org/W2044943383","https://openalex.org/W2152033571"],"abstract_inverted_index":{"HapCHAT":[0],"is":[1],"available":[2],"at":[3],"http://hapchat.algolab.eu":[4],"under":[5],"the":[6],"GNU":[7],"Public":[8],"License":[9],"(GPL).":[10]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
