{"id":"https://openalex.org/W3080226593","doi":"https://doi.org/10.1186/s12859-020-03561-y","title":"OscoNet: inferring oscillatory gene networks","display_name":"OscoNet: inferring oscillatory gene networks","publication_year":2020,"publication_date":"2020-08-01","ids":{"openalex":"https://openalex.org/W3080226593","doi":"https://doi.org/10.1186/s12859-020-03561-y","mag":"3080226593","pmid":"https://pubmed.ncbi.nlm.nih.gov/32838730"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03561-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03561-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-03561-y","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/counter/pdf/10.1186/s12859-020-03561-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060810496","display_name":"Luisa Cutillo","orcid":"https://orcid.org/0000-0002-2205-0338"},"institutions":[{"id":"https://openalex.org/I130828816","display_name":"University of Leeds","ror":"https://ror.org/024mrxd33","country_code":"GB","type":"education","lineage":["https://openalex.org/I130828816"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Luisa Cutillo","raw_affiliation_strings":["University of Leeds, Leeds, UK. l.cutillo@leeds.ac.uk","University of Leeds, Leeds, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Leeds, Leeds, UK. l.cutillo@leeds.ac.uk","institution_ids":["https://openalex.org/I130828816"]},{"raw_affiliation_string":"University of Leeds, Leeds, UK","institution_ids":["https://openalex.org/I130828816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020971679","display_name":"Alexis Boukouvalas","orcid":"https://orcid.org/0000-0003-3306-3692"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alexis Boukouvalas","raw_affiliation_strings":["Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036540442","display_name":"Elli Marinopoulou","orcid":"https://orcid.org/0000-0002-6379-5168"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Elli Marinopoulou","raw_affiliation_strings":["Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086456495","display_name":"Nancy Papalopulu","orcid":"https://orcid.org/0000-0001-6992-6870"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nancy Papalopulu","raw_affiliation_strings":["Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023995814","display_name":"Magnus Rattray","orcid":"https://orcid.org/0000-0001-8196-5565"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Magnus Rattray","raw_affiliation_strings":["Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5060810496"],"corresponding_institution_ids":["https://openalex.org/I130828816"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.1667,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.50390743,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"21","issue":"S10","first_page":"351","last_page":"351"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9925000071525574,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9925000071525574,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0026000000070780516,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0013000000035390258,"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/snapshot","display_name":"Snapshot (computer storage)","score":0.8343008160591125},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6559687852859497},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.538159191608429},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.47625136375427246},{"id":"https://openalex.org/keywords/statistical-hypothesis-testing","display_name":"Statistical hypothesis testing","score":0.46596625447273254},{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.4635462164878845},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4378150701522827},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.433867871761322},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4199420213699341},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.37988442182540894},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30357635021209717},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2541942596435547},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21571290493011475},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.19218096137046814},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.09855315089225769}],"concepts":[{"id":"https://openalex.org/C55282118","wikidata":"https://www.wikidata.org/wiki/Q252683","display_name":"Snapshot (computer storage)","level":2,"score":0.8343008160591125},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6559687852859497},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.538159191608429},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.47625136375427246},{"id":"https://openalex.org/C87007009","wikidata":"https://www.wikidata.org/wiki/Q210832","display_name":"Statistical hypothesis testing","level":2,"score":0.46596625447273254},{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.4635462164878845},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4378150701522827},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.433867871761322},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4199420213699341},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.37988442182540894},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30357635021209717},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2541942596435547},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21571290493011475},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.19218096137046814},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.09855315089225769},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000066449","descriptor_name":"Human Embryonic Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000066449","descriptor_name":"Human Embryonic Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000066449","descriptor_name":"Human Embryonic Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000066449","descriptor_name":"Human Embryonic Stem Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057906","descriptor_name":"Circadian Clocks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D057906","descriptor_name":"Circadian Clocks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D057906","descriptor_name":"Circadian Clocks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D057906","descriptor_name":"Circadian Clocks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1186/s12859-020-03561-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03561-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-03561-y","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:32838730","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32838730","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:pure.atira.dk:openaire/530f4029-350f-4db0-ba0d-3152581d23d7","is_oa":true,"landing_page_url":"https://research.manchester.ac.uk/en/publications/530f4029-350f-4db0-ba0d-3152581d23d7","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Cutillo, L, Boukouvalas, A, Marinopoulou, E, Papalopulu, N & Rattray, M 2020, 'OscoNet : inferring oscillatory gene networks', BMC Bioinformatics, vol. 21, no. Suppl 10, pp. 351. https://doi.org/10.1186/s12859-020-03561-y","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:eprints.whiterose.ac.uk:150288","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400854","display_name":"White Rose Research Online (University of Leeds, The University of Sheffield, University of York)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2800616092","host_organization_name":"White Rose University Consortium","host_organization_lineage":["https://openalex.org/I2800616092"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:129c1bd1b85642938e04a9589c549a45","is_oa":true,"landing_page_url":"https://doaj.org/article/129c1bd1b85642938e04a9589c549a45","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss S10, Pp 1-19 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7445923","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7445923","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:pure.atira.dk:publications/530f4029-350f-4db0-ba0d-3152581d23d7","is_oa":true,"landing_page_url":"https://www.research.manchester.ac.uk/portal/en/publications/osconet(530f4029-350f-4db0-ba0d-3152581d23d7).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"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":"Cutillo, L, Boukouvalas, A, Marinopoulou, E, Papalopulu, N & Rattray, M 2020, 'OscoNet : inferring oscillatory gene networks', BMC Bioinformatics, vol. 21, no. Suppl 10, pp. 351. https://doi.org/10.1186/s12859-020-03561-y","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03561-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03561-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-03561-y","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":[],"awards":[{"id":"https://openalex.org/G2123666788","display_name":null,"funder_award_id":"MR/M008908/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G5581894473","display_name":"Advancing therapeutics by exploiting single cell functional analysis","funder_award_id":"MR/M008908/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G6628832997","display_name":null,"funder_award_id":"106185/Z/14/Z","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G670262785","display_name":null,"funder_award_id":"201380/Z/16/Z","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G797069378","display_name":null,"funder_award_id":"MR/P023576/2","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320320291","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3080226593.pdf","grobid_xml":"https://content.openalex.org/works/W3080226593.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W66306528","https://openalex.org/W1754857113","https://openalex.org/W1964895626","https://openalex.org/W1971421925","https://openalex.org/W1993482839","https://openalex.org/W2006933206","https://openalex.org/W2047940964","https://openalex.org/W2086943348","https://openalex.org/W2095293504","https://openalex.org/W2097308346","https://openalex.org/W2098509290","https://openalex.org/W2105712639","https://openalex.org/W2118502328","https://openalex.org/W2127048411","https://openalex.org/W2164998314","https://openalex.org/W2233603983","https://openalex.org/W2338756998","https://openalex.org/W2412784379","https://openalex.org/W2422879816","https://openalex.org/W2617549535","https://openalex.org/W2914201910","https://openalex.org/W3102641634","https://openalex.org/W3105828785","https://openalex.org/W4235169531"],"related_works":["https://openalex.org/W2542847180","https://openalex.org/W3034994054","https://openalex.org/W2805712290","https://openalex.org/W2909129499","https://openalex.org/W2761598930","https://openalex.org/W2392087771","https://openalex.org/W2356600124","https://openalex.org/W4245782888","https://openalex.org/W3181327668","https://openalex.org/W4312411653"],"abstract_inverted_index":{"BACKGROUND:":[0],"Oscillatory":[1],"genes,":[2],"with":[3,25],"periodic":[4],"expression":[5],"at":[6,112],"the":[7,26,29,55,77,96,136,148,168,183,208,211],"mRNA":[8],"and/or":[9],"protein":[10],"level,":[11],"have":[12],"been":[13],"shown":[14],"to":[15,54,66,108,196],"play":[16],"a":[17,36,50,62,85,103,113,191],"pivotal":[18],"role":[19],"in":[20,166],"many":[21,206],"biological":[22],"contexts.":[23],"However,":[24],"exception":[27],"of":[28,57,80,143,207,210],"circadian":[30],"clock":[31],"and":[32,101,123,127,193],"cell":[33,170],"cycle,":[34],"only":[35],"few":[37],"such":[38],"genes":[39,44,111],"are":[40],"known.":[41],"Detecting":[42],"oscillatory":[43,91,110,198],"from":[45,201],"snapshot":[46,202],"single-cell":[47,72,203],"experiments":[48],"is":[49,61,132,163,190],"challenging":[51],"task":[52],"due":[53],"lack":[56],"time":[58,181],"information.":[59],"Oscope":[60,81,100,138,213],"recently":[63],"proposed":[64,159],"method":[65,162],"identify":[67],"co-oscillatory":[68],"gene":[69,174,199],"pairs":[70],"using":[71],"RNA-seq":[73],"data.":[74],"Although":[75],"promising,":[76],"current":[78],"implementation":[79],"does":[82],"not":[83],"provide":[84,102],"principled":[86],"statistical":[87],"criterion":[88],"for":[89,150,172],"selecting":[90],"genes.":[92],"RESULTS:":[93],"We":[94,117,154],"improve":[95],"optimisation":[97],"scheme":[98],"underlying":[99],"well-calibrated":[104],"non-parametric":[105],"hypothesis":[106],"test":[107],"select":[109],"given":[114],"FDR":[115],"threshold.":[116],"evaluate":[118],"performance":[119],"on":[120],"synthetic":[121],"data":[122,204],"three":[124],"real":[125],"datasets":[126],"show":[128],"that":[129],"our":[130,158],"approach":[131,195],"more":[133,164],"sensitive":[134],"than":[135,182],"original":[137,212],"formulation,":[139],"discovering":[140],"larger":[141],"sets":[142],"known":[144],"oscillators":[145],"while":[146,176],"avoiding":[147],"need":[149],"less":[151,179],"interpretable":[152],"thresholds.":[153],"also":[155],"describe":[156],"how":[157],"pseudo-time":[160],"estimation":[161],"accurate":[165],"recovering":[167],"true":[169],"order":[171],"each":[173],"cluster":[175],"requiring":[177],"substantially":[178],"computation":[180],"extended":[184],"nearest":[185],"insertion":[186],"approach.":[187],"CONCLUSIONS:":[188],"OscoNet":[189],"robust":[192],"versatile":[194],"detect":[197],"networks":[200],"addressing":[205],"limitations":[209],"method.":[214]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-06-02T09:04:35.204637","created_date":"2025-10-10T00:00:00"}