{"id":"https://openalex.org/W4409074288","doi":"https://doi.org/10.1007/978-3-031-86193-2_18","title":"HPC-CleanSeq: A Tool for Contamination Removal in Big RNA-Seq Datasets","display_name":"HPC-CleanSeq: A Tool for Contamination Removal in Big RNA-Seq Datasets","publication_year":2025,"publication_date":"2025-01-01","ids":{"openalex":"https://openalex.org/W4409074288","doi":"https://doi.org/10.1007/978-3-031-86193-2_18"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-031-86193-2_18","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-031-86193-2_18","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5095904026","display_name":"Franco Liberati","orcid":null},"institutions":[{"id":"https://openalex.org/I138938424","display_name":"Universit\u00e0 degli Studi della Tuscia","ror":"https://ror.org/03svwq685","country_code":"IT","type":"education","lineage":["https://openalex.org/I138938424"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Franco Liberati","raw_affiliation_strings":["Department of Ecological and Biological Sciences, University of Tuscia, Viale dell\u2019Universit\u00e0 s.n.c., 01100, Viterbo, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecological and Biological Sciences, University of Tuscia, Viale dell\u2019Universit\u00e0 s.n.c., 01100, Viterbo, Italy","institution_ids":["https://openalex.org/I138938424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049322503","display_name":"Federico Giannelli","orcid":null},"institutions":[{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Federico Giannelli","raw_affiliation_strings":["Department of Computer Science, Sapienza University of Rome, Viale Regina Elena 295, 00166, Rome, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Sapienza University of Rome, Viale Regina Elena 295, 00166, Rome, Italy","institution_ids":["https://openalex.org/I861853513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020960557","display_name":"Paolo Bottoni","orcid":"https://orcid.org/0000-0003-4662-2019"},"institutions":[{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paolo Bottoni","raw_affiliation_strings":["Department of Computer Science, Sapienza University of Rome, Viale Regina Elena 295, 00166, Rome, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Sapienza University of Rome, Viale Regina Elena 295, 00166, Rome, Italy","institution_ids":["https://openalex.org/I861853513"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086235625","display_name":"Tiziana Castrignan\u00f2","orcid":"https://orcid.org/0000-0002-0689-6720"},"institutions":[{"id":"https://openalex.org/I138938424","display_name":"Universit\u00e0 degli Studi della Tuscia","ror":"https://ror.org/03svwq685","country_code":"IT","type":"education","lineage":["https://openalex.org/I138938424"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Tiziana Castrignan\u00f2","raw_affiliation_strings":["Department of Ecological and Biological Sciences, University of Tuscia, Viale dell\u2019Universit\u00e0 s.n.c., 01100, Viterbo, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecological and Biological Sciences, University of Tuscia, Viale dell\u2019Universit\u00e0 s.n.c., 01100, Viterbo, Italy","institution_ids":["https://openalex.org/I138938424"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5095904026"],"corresponding_institution_ids":["https://openalex.org/I138938424"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"282","last_page":"293"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9955999851226807,"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":0.9955999851226807,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.9955999851226807,"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":0.9480999708175659,"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/computer-science","display_name":"Computer science","score":0.8224615454673767},{"id":"https://openalex.org/keywords/contamination","display_name":"Contamination","score":0.648449182510376},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.6130320429801941},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.32477661967277527},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07632407546043396},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.051246970891952515},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.041594356298446655}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8224615454673767},{"id":"https://openalex.org/C112570922","wikidata":"https://www.wikidata.org/wiki/Q60528603","display_name":"Contamination","level":2,"score":0.648449182510376},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.6130320429801941},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32477661967277527},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07632407546043396},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.051246970891952515},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.041594356298446655},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1007/978-3-031-86193-2_18","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-031-86193-2_18","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmh:oai:iris.uniroma1.it:11573/1752178","is_oa":false,"landing_page_url":"https://hdl.handle.net/11573/1752178","pdf_url":null,"source":{"id":"https://openalex.org/S4377196107","display_name":"IRIS Research product catalog (Sapienza University of Rome)","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/conferenceObject"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W1542426682","https://openalex.org/W1560609674","https://openalex.org/W1992685092","https://openalex.org/W2124799197","https://openalex.org/W2148742201","https://openalex.org/W2151623076","https://openalex.org/W2153498291","https://openalex.org/W2159647614","https://openalex.org/W2395783098","https://openalex.org/W2425320972","https://openalex.org/W2616754551","https://openalex.org/W2784343017","https://openalex.org/W2809850832","https://openalex.org/W2945410544","https://openalex.org/W2951160681","https://openalex.org/W3041611157","https://openalex.org/W3080366061","https://openalex.org/W3080863928","https://openalex.org/W3122576841","https://openalex.org/W4206515897","https://openalex.org/W4213316818","https://openalex.org/W4231889732","https://openalex.org/W4384823408","https://openalex.org/W4395666511","https://openalex.org/W4401327672","https://openalex.org/W4401756121","https://openalex.org/W4402454718"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W4246525302","https://openalex.org/W2355749553","https://openalex.org/W2327028314","https://openalex.org/W2070278412","https://openalex.org/W281735054","https://openalex.org/W2565462584","https://openalex.org/W1533753578"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
