{"id":"https://openalex.org/W4361223609","doi":"https://doi.org/10.1186/s12859-023-05214-2","title":"CenFind: a deep-learning pipeline for efficient centriole detection in microscopy datasets","display_name":"CenFind: a deep-learning pipeline for efficient centriole detection in microscopy datasets","publication_year":2023,"publication_date":"2023-03-28","ids":{"openalex":"https://openalex.org/W4361223609","doi":"https://doi.org/10.1186/s12859-023-05214-2","pmid":"https://pubmed.ncbi.nlm.nih.gov/36977999"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-023-05214-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05214-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05214-2","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/s12859-023-05214-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056351967","display_name":"L\u00e9o B\u00fcrgy","orcid":"https://orcid.org/0000-0002-8896-8301"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"L\u00e9o B\u00fcrgy","raw_affiliation_strings":["Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001563470","display_name":"Martin Weigert","orcid":"https://orcid.org/0000-0002-7780-9057"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Martin Weigert","raw_affiliation_strings":["Interschool Institute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Interschool Institute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090557595","display_name":"Georgios N. Hatzopoulos","orcid":"https://orcid.org/0000-0003-4382-4459"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Georgios Hatzopoulos","raw_affiliation_strings":["Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051729318","display_name":"Matthias Minder","orcid":null},"institutions":[{"id":"https://openalex.org/I4210153535","display_name":"Swiss Federal Railways","ror":"https://ror.org/052z4cr88","country_code":"CH","type":"government","lineage":["https://openalex.org/I4210153535"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Matthias Minder","raw_affiliation_strings":["Institute of Physics, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","SBB Consulting, Hilfikerstrasse 1, 3000, Bern 65, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Physics, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"SBB Consulting, Hilfikerstrasse 1, 3000, Bern 65, Switzerland","institution_ids":["https://openalex.org/I4210153535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075238508","display_name":"Adrien Journ\u00e9","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Adrien Journ\u00e9","raw_affiliation_strings":["Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041666010","display_name":"Sahand Jamal Rahi","orcid":"https://orcid.org/0000-0001-6442-7087"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Sahand Jamal Rahi","raw_affiliation_strings":["Institute of Physics, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Physics, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016890522","display_name":"Pierre G\u00f6nczy","orcid":"https://orcid.org/0000-0002-6305-6883"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Pierre G\u00f6nczy","raw_affiliation_strings":["Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland. pierre.gonczy@epfl.ch","Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland. pierre.gonczy@epfl.ch","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Swiss Institute for Experimental Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne, 1015, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5016890522"],"corresponding_institution_ids":["https://openalex.org/I5124864"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.1907,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.54472567,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"24","issue":"1","first_page":"120","last_page":"120"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10492","display_name":"Microtubule and mitosis dynamics","score":0.6197999715805054,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10492","display_name":"Microtubule and mitosis dynamics","score":0.6197999715805054,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10604","display_name":"RNA Research and Splicing","score":0.05040000006556511,"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/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.04410000145435333,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/centriole","display_name":"Centriole","score":0.939117431640625},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6799238324165344},{"id":"https://openalex.org/keywords/centrosome","display_name":"Centrosome","score":0.6619678735733032},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.65034019947052},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.5166304707527161},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.479842871427536},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.42885324358940125},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4197606146335602},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.41775763034820557},{"id":"https://openalex.org/keywords/immunofluorescence","display_name":"Immunofluorescence","score":0.4131217300891876},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.39109453558921814},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38400667905807495},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31261321902275085},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.2577928304672241},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.23414352536201477},{"id":"https://openalex.org/keywords/cell-cycle","display_name":"Cell cycle","score":0.14584925770759583},{"id":"https://openalex.org/keywords/microtubule","display_name":"Microtubule","score":0.13446557521820068},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10720953345298767},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08310306072235107}],"concepts":[{"id":"https://openalex.org/C48342290","wikidata":"https://www.wikidata.org/wiki/Q178355","display_name":"Centriole","level":3,"score":0.939117431640625},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6799238324165344},{"id":"https://openalex.org/C10447061","wikidata":"https://www.wikidata.org/wiki/Q190769","display_name":"Centrosome","level":4,"score":0.6619678735733032},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.65034019947052},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.5166304707527161},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.479842871427536},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.42885324358940125},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4197606146335602},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.41775763034820557},{"id":"https://openalex.org/C2778236600","wikidata":"https://www.wikidata.org/wiki/Q592324","display_name":"Immunofluorescence","level":3,"score":0.4131217300891876},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.39109453558921814},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38400667905807495},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31261321902275085},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.2577928304672241},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.23414352536201477},{"id":"https://openalex.org/C29537977","wikidata":"https://www.wikidata.org/wiki/Q188941","display_name":"Cell cycle","level":3,"score":0.14584925770759583},{"id":"https://openalex.org/C20418707","wikidata":"https://www.wikidata.org/wiki/Q189933","display_name":"Microtubule","level":2,"score":0.13446557521820068},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10720953345298767},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08310306072235107},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002502","descriptor_name":"Centrioles","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002502","descriptor_name":"Centrioles","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002502","descriptor_name":"Centrioles","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018385","descriptor_name":"Centrosome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018385","descriptor_name":"Centrosome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018385","descriptor_name":"Centrosome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-023-05214-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05214-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05214-2","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:36977999","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36977999","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:pubmedcentral.nih.gov:10045196","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10045196","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10045196/pdf/12859_2023_Article_5214.pdf","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:doaj.org/article:ecbf773f95434e0bbc207250a55486d4","is_oa":true,"landing_page_url":"https://doaj.org/article/ecbf773f95434e0bbc207250a55486d4","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 24, Iss 1, Pp 1-10 (2023)","raw_type":"article"},{"id":"pmh:oai:infoscience.epfl.ch:302284","is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/handle/20.500.14299/197398","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"WoS","raw_type":"research article"}],"best_oa_location":{"id":"doi:10.1186/s12859-023-05214-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-023-05214-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-023-05214-2","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":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.6299999952316284}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320915","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4361223609.pdf"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1677182931","https://openalex.org/W2003370853","https://openalex.org/W2015159529","https://openalex.org/W2034501924","https://openalex.org/W2072460025","https://openalex.org/W2137788460","https://openalex.org/W2172315679","https://openalex.org/W2794465828","https://openalex.org/W2806530968","https://openalex.org/W2889985731","https://openalex.org/W2917857721","https://openalex.org/W2950501364","https://openalex.org/W2999155059","https://openalex.org/W3037701504","https://openalex.org/W3099319035","https://openalex.org/W3197473457"],"related_works":["https://openalex.org/W2066489402","https://openalex.org/W3024787502","https://openalex.org/W2084152745","https://openalex.org/W2011611726","https://openalex.org/W2405492717","https://openalex.org/W3035661230","https://openalex.org/W4211128376","https://openalex.org/W2161155561","https://openalex.org/W3038326693","https://openalex.org/W2415681670"],"abstract_inverted_index":{"Abstract":[0],"Background":[1],"High-throughput":[2],"and":[3,29,41,72,84,111,163,178,185,223,246,297],"selective":[4],"detection":[5,32,44,117,160,188,248,299],"of":[6,57,66,118,143,161,209,237,249,291,307],"organelles":[7],"in":[8,17,39,45,120,140,166,256,312,325],"immunofluorescence":[9,123,141],"images":[10,142],"is":[11,23,33,73,104,199,251],"an":[12,109,252],"important":[13,253],"but":[14],"demanding":[15],"task":[16],"cell":[18,64,230,289],"biology.":[19],"The":[20,190],"centriole":[21,37,138,238],"organelle":[22,58],"critical":[24,321],"for":[25,35,100,107,114,137,322],"fundamental":[26],"cellular":[27],"processes,":[28],"its":[30,310],"accurate":[31,159,296],"key":[34],"analysing":[36],"function":[38],"health":[40],"disease.":[42],"Centriole":[43],"human":[46,144],"tissue":[47],"culture":[48],"cells":[49,136],"has":[50,68],"been":[51],"achieved":[52,196],"typically":[53],"by":[54,197],"manual":[55,63],"determination":[56],"number":[59],"per":[60,240],"cell.":[61,241],"However,":[62],"scoring":[65,236,290],"centrioles":[67,83,86,119,222,250],"a":[69,97,105,128,172,269,282],"low":[70],"throughput":[71],"not":[74,85,263],"reproducible.":[75],"Published":[76],"semi-automated":[77],"methods":[78,90,260],"tally":[79],"the":[80,115,149,158,183,203,207,210,214,221,229,257,304,326],"centrosome":[81],"surrounding":[82],"themselves.":[87],"Furthermore,":[88],"such":[89],"rely":[91],"on":[92,148,268],"hard-coded":[93],"parameters":[94],"or":[95,266],"require":[96],"multichannel":[98],"input":[99],"cross-correlation.":[101],"Therefore,":[102],"there":[103],"need":[106,255],"developing":[108],"efficient":[110],"versatile":[112],"pipeline":[113,130,286],"automatic":[116,235],"single":[121],"channel":[122],"datasets.":[124],"Results":[125],"We":[126,170],"developed":[127,279],"deep-learning":[129],"termed":[131],"CenFind":[132,146,198,227,280,308,318],"that":[133,287],"automatically":[134],"scores":[135],"numbers":[139,239],"cells.":[145],"relies":[147],"multi-scale":[150],"convolution":[151],"neural":[152],"network":[153],"SpotNet":[154],",":[155,281],"which":[156],"allows":[157],"sparse":[162],"minute":[164],"foci":[165],"high":[167],"resolution":[168],"images.":[169],"built":[171],"dataset":[173],"using":[174,213],"different":[175],"experimental":[176,301],"settings":[177],"used":[179],"it":[180],"to":[181,228,319],"train":[182],"model":[184],"evaluate":[186],"existing":[187],"methods.":[189],"resulting":[191],"average":[192],"F":[193],"1":[194],"-score":[195],">":[200],"90%":[201],"across":[202,300],"test":[204],"set,":[205],"demonstrating":[206],"robustness":[208],"pipeline.":[211],"Moreover,":[212,303],"StarDist":[215],"-based":[216],"nucleus":[217],"detector,":[218],"we":[219,278,316],"link":[220],"procentrioles":[224],"detected":[225],"with":[226],"containing":[231],"them,":[232],"overall":[233],"enabling":[234,294],"Conclusions":[242],"Efficient,":[243],"accurate,":[244],"channel-intrinsic":[245],"reproducible":[247,298],"unmet":[254],"field.":[258,327],"Existing":[259],"are":[261],"either":[262],"discriminative":[264],"enough":[265],"focus":[267],"fixed":[270],"multi-channel":[271],"input.":[272],"To":[273],"fill":[274],"this":[275],"methodological":[276],"gap,":[277],"command":[283],"line":[284],"interface":[285],"automates":[288],"centrioles,":[292],"thereby":[293],"channel-intrinsic,":[295],"modalities.":[302],"modular":[305],"nature":[306],"enables":[309],"integration":[311],"other":[313],"pipelines.":[314],"Overall,":[315],"anticipate":[317],"prove":[320],"accelerating":[323],"discoveries":[324]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-17T06:14:20.161405","created_date":"2025-10-10T00:00:00"}