{"id":"https://openalex.org/W4407825587","doi":"https://doi.org/10.1007/s10766-025-00786-3","title":"Parallelizing RNA-Seq Analysis with BioSkel: A FastFlow Based Prototype","display_name":"Parallelizing RNA-Seq Analysis with BioSkel: A FastFlow Based Prototype","publication_year":2025,"publication_date":"2025-02-21","ids":{"openalex":"https://openalex.org/W4407825587","doi":"https://doi.org/10.1007/s10766-025-00786-3"},"language":"en","primary_location":{"id":"doi:10.1007/s10766-025-00786-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10766-025-00786-3","pdf_url":null,"source":{"id":"https://openalex.org/S148521650","display_name":"International Journal of Parallel Programming","issn_l":"0885-7458","issn":["0885-7458","1573-7640"],"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":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Parallel Programming","raw_type":"journal-article"},"type":"article","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/A5116370608","display_name":"Valentin Beauvais","orcid":null},"institutions":[{"id":"https://openalex.org/I12449238","display_name":"Universit\u00e9 d'Orl\u00e9ans","ror":"https://ror.org/014zrew76","country_code":"FR","type":"education","lineage":["https://openalex.org/I12449238"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Valentin Beauvais","raw_affiliation_strings":["LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France","institution_ids":["https://openalex.org/I12449238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071107206","display_name":"Nicol\u00f2 Tonci","orcid":"https://orcid.org/0009-0003-3631-0756"},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Nicol\u00f2 Tonci","raw_affiliation_strings":["Computer Science Department, University of Pisa, Largo Bruno Pontecorvo 3, 56127, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Science Department, University of Pisa, Largo Bruno Pontecorvo 3, 56127, Pisa, Italy","institution_ids":["https://openalex.org/I108290504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082820960","display_name":"Sophie Robert","orcid":"https://orcid.org/0000-0003-4359-9124"},"institutions":[{"id":"https://openalex.org/I12449238","display_name":"Universit\u00e9 d'Orl\u00e9ans","ror":"https://ror.org/014zrew76","country_code":"FR","type":"education","lineage":["https://openalex.org/I12449238"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Sophie Robert","raw_affiliation_strings":["LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France","institution_ids":["https://openalex.org/I12449238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050247937","display_name":"S\u00e9bastien Limet","orcid":null},"institutions":[{"id":"https://openalex.org/I12449238","display_name":"Universit\u00e9 d'Orl\u00e9ans","ror":"https://ror.org/014zrew76","country_code":"FR","type":"education","lineage":["https://openalex.org/I12449238"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"S\u00e9bastien Limet","raw_affiliation_strings":["LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LIFO, Univ. Orl\u00e9ans, 6 Rue L\u00e9onard de Vinci, 45067, Orl\u00e9ans, France","institution_ids":["https://openalex.org/I12449238"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5071107206","https://openalex.org/A5116370608"],"corresponding_institution_ids":["https://openalex.org/I108290504","https://openalex.org/I12449238"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":null,"fwci":0.3717,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.53860575,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":94},"biblio":{"volume":"53","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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":0.9991999864578247,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9958999752998352,"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":0.9951000213623047,"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":0.8965719938278198},{"id":"https://openalex.org/keywords/theory-of-computation","display_name":"Theory of computation","score":0.7749491930007935},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.5503112077713013},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.3997917175292969},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3657880425453186},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3301338851451874}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8965719938278198},{"id":"https://openalex.org/C24858836","wikidata":"https://www.wikidata.org/wiki/Q844718","display_name":"Theory of computation","level":2,"score":0.7749491930007935},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5503112077713013},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.3997917175292969},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3657880425453186},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3301338851451874},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"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},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1007/s10766-025-00786-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10766-025-00786-3","pdf_url":null,"source":{"id":"https://openalex.org/S148521650","display_name":"International Journal of Parallel Programming","issn_l":"0885-7458","issn":["0885-7458","1573-7640"],"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":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Parallel Programming","raw_type":"journal-article"},{"id":"pmh:oai:HAL:hal-05092279v1","is_oa":false,"landing_page_url":"https://hal.science/hal-05092279","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"International Journal of Parallel Programming, 2025, 53 (2), pp.7. &#x27E8;10.1007/s10766-025-00786-3&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:arpi.unipi.it:11568/1329049","is_oa":false,"landing_page_url":"https://hdl.handle.net/11568/1329049","pdf_url":null,"source":{"id":"https://openalex.org/S4377196265","display_name":"CINECA IRIS Institutial research information system (University of Pisa)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I108290504","host_organization_name":"University of Pisa","host_organization_lineage":["https://openalex.org/I108290504"],"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/article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":46,"referenced_works":["https://openalex.org/W1538125091","https://openalex.org/W1606512765","https://openalex.org/W1828154403","https://openalex.org/W1980073965","https://openalex.org/W2009571806","https://openalex.org/W2074231493","https://openalex.org/W2087064593","https://openalex.org/W2110417468","https://openalex.org/W2114104545","https://openalex.org/W2121716038","https://openalex.org/W2134526812","https://openalex.org/W2138207763","https://openalex.org/W2144560237","https://openalex.org/W2158322625","https://openalex.org/W2160694821","https://openalex.org/W2162758337","https://openalex.org/W2169456326","https://openalex.org/W2170551349","https://openalex.org/W2179438025","https://openalex.org/W2256063247","https://openalex.org/W2323326409","https://openalex.org/W2336894004","https://openalex.org/W2355481012","https://openalex.org/W2526975281","https://openalex.org/W2592811885","https://openalex.org/W2605897695","https://openalex.org/W2753396470","https://openalex.org/W2785694006","https://openalex.org/W2789843538","https://openalex.org/W2792398545","https://openalex.org/W2794514292","https://openalex.org/W2952768760","https://openalex.org/W2960358269","https://openalex.org/W2964849163","https://openalex.org/W3047916956","https://openalex.org/W3163033414","https://openalex.org/W3193844559","https://openalex.org/W3209541830","https://openalex.org/W3217753204","https://openalex.org/W4225665859","https://openalex.org/W4226051960","https://openalex.org/W4311119683","https://openalex.org/W4311803917","https://openalex.org/W4361298788","https://openalex.org/W4388801332","https://openalex.org/W4394813330"],"related_works":["https://openalex.org/W4394426846","https://openalex.org/W4200033037","https://openalex.org/W4394543623","https://openalex.org/W3213655218","https://openalex.org/W4394560977","https://openalex.org/W4394488504","https://openalex.org/W4394163355","https://openalex.org/W3147425560","https://openalex.org/W2233436997","https://openalex.org/W4394166743"],"abstract_inverted_index":null,"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
