{"id":"https://openalex.org/W2887704715","doi":"https://doi.org/10.1093/bioinformatics/bty688","title":"Processing of big heterogeneous genomic datasets for tertiary analysis of Next Generation Sequencing data","display_name":"Processing of big heterogeneous genomic datasets for tertiary analysis of Next Generation Sequencing data","publication_year":2018,"publication_date":"2018-08-06","ids":{"openalex":"https://openalex.org/W2887704715","doi":"https://doi.org/10.1093/bioinformatics/bty688","mag":"2887704715","pmid":"https://pubmed.ncbi.nlm.nih.gov/30101316"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty688","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty688","pdf_url":null,"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":null,"license_id":null,"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":"green","oa_url":"http://hdl.handle.net/11311/1058980","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085346183","display_name":"Marco Masseroli","orcid":"https://orcid.org/0000-0003-2574-1174"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Marco Masseroli","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":"https://orcid.org/0000-0003-2574-1174","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023498681","display_name":"Arif Canakoglu","orcid":"https://orcid.org/0000-0003-4528-6586"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Arif Canakoglu","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074094001","display_name":"Pietro Pinoli","orcid":"https://orcid.org/0000-0001-9786-2851"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Pietro Pinoli","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016603624","display_name":"Abdulrahman Kaitoua","orcid":"https://orcid.org/0000-0002-0244-9691"},"institutions":[{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Abdulrahman Kaitoua","raw_affiliation_strings":["The German Research Center for Artificial Intelligence (DFKI), Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The German Research Center for Artificial Intelligence (DFKI), Berlin, Germany","institution_ids":["https://openalex.org/I33256026"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089296485","display_name":"Andrea Gulino","orcid":"https://orcid.org/0000-0003-0201-9461"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Andrea Gulino","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061011775","display_name":"Olha Horlova","orcid":"https://orcid.org/0000-0002-6840-5931"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Olha Horlova","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079380917","display_name":"Luca Nanni","orcid":"https://orcid.org/0000-0001-7021-2007"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Luca Nanni","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078800193","display_name":"Anna Bernasconi","orcid":"https://orcid.org/0000-0001-8016-5750"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Anna Bernasconi","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102904487","display_name":"Stefano Perna","orcid":"https://orcid.org/0000-0002-2038-7121"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Perna","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070330385","display_name":"Eirini Stamoulakatou","orcid":"https://orcid.org/0000-0001-7528-3306"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Eirini Stamoulakatou","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048332811","display_name":"Stefano Ceri","orcid":"https://orcid.org/0000-0003-0671-2415"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Ceri","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5085346183"],"corresponding_institution_ids":["https://openalex.org/I93860229"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":3.3673,"has_fulltext":true,"cited_by_count":81,"citation_normalized_percentile":{"value":0.93686041,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"35","issue":"5","first_page":"729","last_page":"736"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5885000228881836,"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":0.5885000228881836,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.13930000364780426,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.04839999973773956,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8362413644790649},{"id":"https://openalex.org/keywords/software-portability","display_name":"Software portability","score":0.7176726460456848},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6161933541297913},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.5641050338745117},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.529589831829071},{"id":"https://openalex.org/keywords/implementation","display_name":"Implementation","score":0.5179654359817505},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4637520909309387},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.4567365348339081},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.42563366889953613},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.418349951505661},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.29148775339126587},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.2691880762577057},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.22188258171081543}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8362413644790649},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.7176726460456848},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6161933541297913},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.5641050338745117},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.529589831829071},{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.5179654359817505},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4637520909309387},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.4567365348339081},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.42563366889953613},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.418349951505661},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.29148775339126587},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.2691880762577057},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.22188258171081543},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","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":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","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":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","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":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty688","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty688","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30101316","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30101316","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":"Journal Article"},{"id":"pmh:oai:re.public.polimi.it:11311/1058980","is_oa":true,"landing_page_url":"http://hdl.handle.net/11311/1058980","pdf_url":"http://hdl.handle.net/11311/1058980","source":{"id":"https://openalex.org/S4306400312","display_name":"Virtual Community of Pathological Anatomy (University of Castilla La Mancha)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79189158","host_organization_name":"University of Castilla-La Mancha","host_organization_lineage":["https://openalex.org/I79189158"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"pmh:oai:re.public.polimi.it:11311/1058980","is_oa":true,"landing_page_url":"http://hdl.handle.net/11311/1058980","pdf_url":"http://hdl.handle.net/11311/1058980","source":{"id":"https://openalex.org/S4306400312","display_name":"Virtual Community of Pathological Anatomy (University of Castilla La Mancha)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79189158","host_organization_name":"University of Castilla-La Mancha","host_organization_lineage":["https://openalex.org/I79189158"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.41999998688697815}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2887704715.pdf","grobid_xml":"https://content.openalex.org/works/W2887704715.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1973094248","https://openalex.org/W1977046764","https://openalex.org/W2014830756","https://openalex.org/W2020467128","https://openalex.org/W2021341670","https://openalex.org/W2023116290","https://openalex.org/W2084160423","https://openalex.org/W2098935637","https://openalex.org/W2102619694","https://openalex.org/W2105071916","https://openalex.org/W2119180969","https://openalex.org/W2119451273","https://openalex.org/W2121184378","https://openalex.org/W2136207878","https://openalex.org/W2142434250","https://openalex.org/W2142680014","https://openalex.org/W2146858470","https://openalex.org/W2147869723","https://openalex.org/W2157355837","https://openalex.org/W2158485828","https://openalex.org/W2259938310","https://openalex.org/W2281326002","https://openalex.org/W2334656801","https://openalex.org/W2337438739","https://openalex.org/W2395376656","https://openalex.org/W2396849069","https://openalex.org/W2469180811","https://openalex.org/W2507333165","https://openalex.org/W2518912002","https://openalex.org/W2566169553","https://openalex.org/W2579251016","https://openalex.org/W2585711475","https://openalex.org/W2613297071","https://openalex.org/W2618063503","https://openalex.org/W2775759996","https://openalex.org/W6675728879"],"related_works":["https://openalex.org/W107105315","https://openalex.org/W1584537303","https://openalex.org/W1872724644","https://openalex.org/W2750549761","https://openalex.org/W4388155270","https://openalex.org/W28826848","https://openalex.org/W2122272819","https://openalex.org/W4367156293","https://openalex.org/W4214505573","https://openalex.org/W2148952300"],"abstract_inverted_index":{"MOTIVATION:":[0],"We":[1],"previously":[2],"proposed":[3],"a":[4,33,59,75,94,118,122,127],"paradigm":[5],"shift":[6],"in":[7],"genomic":[8],"data":[9,21,38,49,172],"management,":[10],"based":[11],"on":[12,24],"the":[13,25,41,146],"Genomic":[14],"Data":[15],"Model":[16],"(GDM)":[17],"for":[18,30,130,160],"mediating":[19],"existing":[20],"formats":[22],"and":[23,40,68,91,126,142],"GenoMetric":[26],"Query":[27],"Language":[28],"(GMQL)":[29],"supporting,":[31],"at":[32,175],"high":[34],"level":[35],"of":[36,51,148],"abstraction,":[37,98],"extraction":[39],"most":[42],"common":[43],"data-driven":[44],"computations":[45],"required":[46],"by":[47],"tertiary":[48],"analysis":[50],"Next":[52],"Generation":[53],"Sequencing":[54],"datasets.":[55],"Here,":[56],"we":[57],"present":[58],"new":[60,72],"GMQL-based":[61],"system":[62,73,115,156],"with":[63],"enhanced":[64],"accessibility,":[65],"portability,":[66],"scalability":[67],"performance.":[69],"RESULTS:":[70],"The":[71,154],"has":[74],"well-designed":[76],"modular":[77],"architecture":[78],"featuring:":[79],"(i)":[80],"an":[81],"intermediate":[82],"representation":[83],"supporting":[84,99],"many":[85],"different":[86,100],"implementations":[87],"(including":[88],"Spark,":[89],"Flink":[90],"SciDB);":[92],"(ii)":[93],"high-level":[95],"technology-independent":[96],"repository":[97,101],"technologies":[102],"(e.g.,":[103],"local":[104],"file":[105],"system,":[106],"Hadoop":[107],"File":[108],"System,":[109],"database":[110],"or":[111],"others);":[112],"(iii)":[113],"several":[114],"interfaces,":[116],"including":[117],"user-friendly":[119],"Web-based":[120],"interface,":[121,125],"Web":[123],"Service":[124],"programmatic":[128],"interface":[129],"Python":[131],"language.":[132],"Biological":[133],"use":[134,162],"case":[135],"examples,":[136],"using":[137],"public":[138],"ENCODE,":[139],"Roadmap":[140],"Epigenomics":[141],"TCGA":[143],"datasets,":[144],"demonstrate":[145],"relevance":[147],"our":[149],"work.":[150],"AVAILABILITY":[151],"AND":[152],"IMPLEMENTATION:":[153],"GMQL":[155],"is":[157],"freely":[158],"available":[159,174],"non-commercial":[161],"as":[163],"open":[164],"source":[165],"project":[166],"at:":[167],"http://www.bioinformatics.deib.polimi.it/GMQLsystem/.":[168],"SUPPLEMENTARY":[169],"INFORMATION:":[170],"Supplementary":[171],"are":[173],"Bioinformatics":[176],"online.":[177]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":13},{"year":2021,"cited_by_count":19},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-08-30T07:30:35.949966","created_date":"2025-10-10T00:00:00"}
