{"id":"https://openalex.org/W4398205968","doi":"https://doi.org/10.1093/bioinformatics/btae324","title":"Automated segmentation and recognition of <i>C. elegans</i> whole-body cells","display_name":"Automated segmentation and recognition of <i>C. elegans</i> whole-body cells","publication_year":2024,"publication_date":"2024-05-01","ids":{"openalex":"https://openalex.org/W4398205968","doi":"https://doi.org/10.1093/bioinformatics/btae324","pmid":"https://pubmed.ncbi.nlm.nih.gov/38775410"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae324","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae324","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae324/57824866/btae324.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae324/57824866/btae324.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5104667825","display_name":"Yuanyuan Li","orcid":"https://orcid.org/0000-0002-0897-5270"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]},{"id":"https://openalex.org/I96852419","display_name":"Capital Normal University","ror":"https://ror.org/005edt527","country_code":"CN","type":"education","lineage":["https://openalex.org/I96852419"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuanyuan Li","raw_affiliation_strings":["College of Life Sciences, Capital Normal University , Beijing 100048, China","Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China"],"raw_orcid":"https://orcid.org/0000-0002-0897-5270","affiliations":[{"raw_affiliation_string":"College of Life Sciences, Capital Normal University , Beijing 100048, China","institution_ids":["https://openalex.org/I96852419"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113283826","display_name":"Chuxiao Lai","orcid":null},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chuxiao Lai","raw_affiliation_strings":["Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013585925","display_name":"Meng C. Wang","orcid":"https://orcid.org/0000-0002-5898-6007"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meng Wang","raw_affiliation_strings":["Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109614539","display_name":"Jun Wu","orcid":null},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jun Wu","raw_affiliation_strings":["Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069483850","display_name":"Yongbin Li","orcid":"https://orcid.org/0000-0002-0686-0883"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]},{"id":"https://openalex.org/I96852419","display_name":"Capital Normal University","ror":"https://ror.org/005edt527","country_code":"CN","type":"education","lineage":["https://openalex.org/I96852419"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongbin Li","raw_affiliation_strings":["College of Life Sciences, Capital Normal University , Beijing 100048, China","Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China"],"raw_orcid":"https://orcid.org/0000-0002-0686-0883","affiliations":[{"raw_affiliation_string":"College of Life Sciences, Capital Normal University , Beijing 100048, China","institution_ids":["https://openalex.org/I96852419"]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Hanchuan Peng","orcid":"https://orcid.org/0000-0002-3478-3942"},"institutions":[{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Hanchuan Peng","raw_affiliation_strings":["SEU-ALLEN Joint Center, Institute for Brain and Intelligence, Southeast University , Nanjing, Jiangsu 210096, China"],"raw_orcid":"https://orcid.org/0000-0002-3478-3942","affiliations":[{"raw_affiliation_string":"SEU-ALLEN Joint Center, Institute for Brain and Intelligence, Southeast University , Nanjing, Jiangsu 210096, China","institution_ids":["https://openalex.org/I76569877"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067303374","display_name":"Lei Qu","orcid":"https://orcid.org/0000-0002-2129-5253"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]},{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lei Qu","raw_affiliation_strings":["Hefei National Laboratory, University of Science and Technology of China , Hefei, Anhui 230039, China","Institute of Artificial Intelligence, Hefei Comprehensive National Science Center , Hefei, Anhui 230039, China","Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","SEU-ALLEN Joint Center, Institute for Brain and Intelligence, Southeast University , Nanjing, Jiangsu 210096, China"],"raw_orcid":"https://orcid.org/0000-0002-2129-5253","affiliations":[{"raw_affiliation_string":"Hefei National Laboratory, University of Science and Technology of China , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I126520041"]},{"raw_affiliation_string":"Institute of Artificial Intelligence, Hefei Comprehensive National Science Center , Hefei, Anhui 230039, China","institution_ids":[]},{"raw_affiliation_string":"Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing, Information Materials and Intelligent Sensing Laboratory of Anhui Province, School of Electronics and Information Engineering, Anhui University , Hefei, Anhui 230039, China","institution_ids":["https://openalex.org/I143868143"]},{"raw_affiliation_string":"SEU-ALLEN Joint Center, Institute for Brain and Intelligence, Southeast University , Nanjing, Jiangsu 210096, China","institution_ids":["https://openalex.org/I76569877"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5067303374"],"corresponding_institution_ids":["https://openalex.org/I126520041","https://openalex.org/I143868143","https://openalex.org/I76569877"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.739,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.66263896,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"40","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10676","display_name":"Genetics, Aging, and Longevity in Model Organisms","score":0.7077000141143799,"subfield":{"id":"https://openalex.org/subfields/1302","display_name":"Aging"},"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/T10676","display_name":"Genetics, Aging, and Longevity in Model Organisms","score":0.7077000141143799,"subfield":{"id":"https://openalex.org/subfields/1302","display_name":"Aging"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.14830000698566437,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T12417","display_name":"Morphological variations and asymmetry","score":0.011699999682605267,"subfield":{"id":"https://openalex.org/subfields/2608","display_name":"Geometry and Topology"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.8184806108474731},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7495394945144653},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.63924640417099},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.5852208137512207},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.5014398097991943},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.48358434438705444},{"id":"https://openalex.org/keywords/fiducial-marker","display_name":"Fiducial marker","score":0.4601697325706482},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.45593398809432983},{"id":"https://openalex.org/keywords/scale-space-segmentation","display_name":"Scale-space segmentation","score":0.4401482343673706}],"concepts":[{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.8184806108474731},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7495394945144653},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.63924640417099},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5852208137512207},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.5014398097991943},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.48358434438705444},{"id":"https://openalex.org/C173974348","wikidata":"https://www.wikidata.org/wiki/Q1469893","display_name":"Fiducial marker","level":2,"score":0.4601697325706482},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.45593398809432983},{"id":"https://openalex.org/C65885262","wikidata":"https://www.wikidata.org/wiki/Q7429708","display_name":"Scale-space segmentation","level":4,"score":0.4401482343673706},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008856","descriptor_name":"Microscopy, Fluorescence","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008856","descriptor_name":"Microscopy, Fluorescence","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008856","descriptor_name":"Microscopy, Fluorescence","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008856","descriptor_name":"Microscopy, Fluorescence","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008856","descriptor_name":"Microscopy, Fluorescence","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017173","descriptor_name":"Caenorhabditis elegans","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D017173","descriptor_name":"Caenorhabditis elegans","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D017173","descriptor_name":"Caenorhabditis elegans","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D017173","descriptor_name":"Caenorhabditis elegans","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D017173","descriptor_name":"Caenorhabditis elegans","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae324","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae324","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae324/57824866/btae324.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38775410","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38775410","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":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11139520","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11139520","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11139520/pdf/btae324.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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae324","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae324","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae324/57824866/btae324.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3226500797","display_name":null,"funder_award_id":"2021-001","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G478943886","display_name":null,"funder_award_id":"62271003","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7563287808","display_name":null,"funder_award_id":"62201008","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4398205968.pdf"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W120040546","https://openalex.org/W2044304894","https://openalex.org/W2084029701","https://openalex.org/W2133147610","https://openalex.org/W2135066173","https://openalex.org/W2149404019","https://openalex.org/W2160938187","https://openalex.org/W2171490473","https://openalex.org/W2418870703","https://openalex.org/W2537691135","https://openalex.org/W2592905743","https://openalex.org/W2790432037","https://openalex.org/W2885343725","https://openalex.org/W2899389586","https://openalex.org/W2961912654","https://openalex.org/W3011821508","https://openalex.org/W3014831329","https://openalex.org/W3098917838","https://openalex.org/W3116063736","https://openalex.org/W3121444399","https://openalex.org/W3133330915","https://openalex.org/W3150322046","https://openalex.org/W3173376021","https://openalex.org/W3214596602","https://openalex.org/W4206353330","https://openalex.org/W4221020680","https://openalex.org/W4240212793","https://openalex.org/W4283793798","https://openalex.org/W4289260056","https://openalex.org/W4311834556","https://openalex.org/W4323052144","https://openalex.org/W4390776040","https://openalex.org/W6840689469"],"related_works":["https://openalex.org/W4388446985","https://openalex.org/W1986655823","https://openalex.org/W2185902295","https://openalex.org/W2103507220","https://openalex.org/W3144569342","https://openalex.org/W3011384228","https://openalex.org/W2945274617","https://openalex.org/W3199300986","https://openalex.org/W4313052709","https://openalex.org/W4298131179"],"abstract_inverted_index":{"MOTIVATION:":[0],"Accurate":[1],"segmentation":[2,48,106,144,188,222],"and":[3,19,33,49,90,107,112,160,167,189,245],"recognition":[4,50,108,157,190,226],"of":[5,37,67,87,110,120,142,145,170,176,191,201,206,232],"C.elegans":[6,92,122,192,208],"cells":[7,39,94,148,214],"are":[8],"critical":[9],"for":[10],"various":[11],"biological":[12],"studies,":[13],"including":[14],"gene":[15],"expression,":[16],"cell":[17,20,47,156,165,241],"lineages,":[18],"fates":[21],"analysis":[22],"at":[23,256],"single-cell":[24],"level.":[25],"However,":[26],"the":[27,70,140,155,174,181,187,221,224],"highly":[28,96,146],"dense":[29],"distribution,":[30],"similar":[31],"shapes,":[32],"inhomogeneous":[34],"intensity":[35],"profiles":[36],"whole-body":[38,93,125,193],"in":[40,79],"3D":[41,116],"fluorescence":[42],"microscopy":[43,118],"images":[44,119],"make":[45],"automatic":[46],"a":[51,65,83,101,204],"challenging":[52],"task.":[53],"Existing":[54],"methods":[55],"either":[56],"rely":[57],"on":[58,164,203,220],"additional":[59],"fiducial":[60,77],"markers":[61],"or":[62,72],"only":[63],"handle":[64],"subset":[66],"cells.":[68,126,172,194,248],"Given":[69],"difficulty":[71],"expense":[73],"associated":[74],"with":[75,123,149,211],"generating":[76],"features":[78],"many":[80],"experimental":[81],"settings,":[82],"marker-free":[84],"approach":[85],"capable":[86],"reliably":[88],"segmenting":[89],"recognizing":[91],"is":[95,136,180,254],"desirable.":[97],"RESULTS:":[98],"We":[99,152,234],"report":[100],"new":[102],"pipeline,":[103],"called":[104],"automated":[105],"(ASR)":[109],"cells,":[111],"applied":[113,185],"it":[114],"to":[115,138,186,239],"fluorescent":[117],"L1-stage":[121],"558":[124],"A":[127],"novel":[128],"displacement":[129],"vector":[130],"field":[131],"based":[132],"deep":[133],"learning":[134],"model":[135],"proposed":[137],"address":[139],"problem":[141],"reliable":[143],"crowded":[147],"blurred":[150],"boundary.":[151],"then":[153],"realize":[154],"by":[158],"encoding":[159],"exploiting":[161],"statistical":[162],"priors":[163],"positions":[166],"structural":[168],"similarities":[169],"neighboring":[171],"To":[173],"best":[175],"our":[177],"knowledge,":[178],"this":[179],"first":[182],"method":[183],"successfully":[184],"The":[195,252],"ASR-segmentation":[196],"module":[197,227],"achieves":[198],"an":[199,229],"F1-score":[200],"0.8956":[202],"dataset":[205],"116":[207],"image":[209],"stacks":[210],"64":[212],"728":[213],"(accuracy":[215],"0.9880,":[216],"AJI":[217],"0.7813).":[218],"Based":[219],"results,":[223],"ASR":[225],"achieved":[228],"average":[230],"accuracy":[231],"0.8879.":[233],"also":[235],"show":[236],"ASR's":[237],"applicability":[238],"other":[240],"types,":[242],"e.g.":[243],"platynereis":[244],"rat":[246],"kidney":[247],"AVAILABILITY":[249],"AND":[250],"IMPLEMENTATION:":[251],"code":[253],"available":[255],"https://github.com/reaneyli/ASR.":[257]},"counts_by_year":[{"year":2025,"cited_by_count":4}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2024-05-23T00:00:00"}