{"id":"https://openalex.org/W4403510293","doi":"https://doi.org/10.1007/s12021-024-09688-0","title":"A Deep Learning-based Pipeline for Segmenting the Cerebral Cortex Laminar Structure in Histology Images","display_name":"A Deep Learning-based Pipeline for Segmenting the Cerebral Cortex Laminar Structure in Histology Images","publication_year":2024,"publication_date":"2024-10-17","ids":{"openalex":"https://openalex.org/W4403510293","doi":"https://doi.org/10.1007/s12021-024-09688-0","pmid":"https://pubmed.ncbi.nlm.nih.gov/39417954"},"language":"en","primary_location":{"id":"doi:10.1007/s12021-024-09688-0","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-024-09688-0","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-024-09688-0.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Neuroinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007/s12021-024-09688-0.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100621288","display_name":"Jiaxuan Wang","orcid":"https://orcid.org/0009-0008-0450-6857"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Jiaxuan Wang","raw_affiliation_strings":["Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106406501","display_name":"Rui Gong","orcid":"https://orcid.org/0000-0001-8038-0696"},"institutions":[{"id":"https://openalex.org/I199525922","display_name":"National Institutes of Natural Sciences","ror":"https://ror.org/055n47h92","country_code":"JP","type":"facility","lineage":["https://openalex.org/I1319490839","https://openalex.org/I199525922"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Rui Gong","raw_affiliation_strings":["Theoretical Biology Group, Department of Creative Research, Exploratory Research Center on Life and Living Systems, National Institutes of Natural Sciences, 5-1 Higashiyama, Myodaiji, Okazaki, Aichi, 444-8787, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Theoretical Biology Group, Department of Creative Research, Exploratory Research Center on Life and Living Systems, National Institutes of Natural Sciences, 5-1 Higashiyama, Myodaiji, Okazaki, Aichi, 444-8787, Japan","institution_ids":["https://openalex.org/I199525922"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077323575","display_name":"Shahrokh Heidari","orcid":"https://orcid.org/0000-0002-1727-939X"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Shahrokh Heidari","raw_affiliation_strings":["Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062659211","display_name":"Mitchell Rogers","orcid":"https://orcid.org/0000-0003-1713-7743"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Mitchell Rogers","raw_affiliation_strings":["Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065441827","display_name":"Toshiki Tani","orcid":null},"institutions":[{"id":"https://openalex.org/I2800939219","display_name":"RIKEN Center for Brain Science","ror":"https://ror.org/04j1n1c04","country_code":"JP","type":"facility","lineage":["https://openalex.org/I2800939219","https://openalex.org/I4210110652"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Toshiki Tani","raw_affiliation_strings":["Laboratory for Molecular Analysis of Higher Brain Function, RIKEN Center for Brain Science, Wako, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory for Molecular Analysis of Higher Brain Function, RIKEN Center for Brain Science, Wako, Japan","institution_ids":["https://openalex.org/I2800939219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088256925","display_name":"Hiroshi Abe","orcid":"https://orcid.org/0000-0002-9711-9715"},"institutions":[{"id":"https://openalex.org/I2800939219","display_name":"RIKEN Center for Brain Science","ror":"https://ror.org/04j1n1c04","country_code":"JP","type":"facility","lineage":["https://openalex.org/I2800939219","https://openalex.org/I4210110652"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroshi Abe","raw_affiliation_strings":["Laboratory for Molecular Analysis of Higher Brain Function, RIKEN Center for Brain Science, Wako, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory for Molecular Analysis of Higher Brain Function, RIKEN Center for Brain Science, Wako, Japan","institution_ids":["https://openalex.org/I2800939219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072269845","display_name":"Noritaka Ichinohe","orcid":"https://orcid.org/0000-0002-8323-4552"},"institutions":[{"id":"https://openalex.org/I4210103779","display_name":"National Center of Neurology and Psychiatry","ror":"https://ror.org/0254bmq54","country_code":"JP","type":"healthcare","lineage":["https://openalex.org/I4210103779"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Noritaka Ichinohe","raw_affiliation_strings":["Department of Ultrastructural Research, National Center of Neurology and Psychiatry, Tokyo, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ultrastructural Research, National Center of Neurology and Psychiatry, Tokyo, Japan","institution_ids":["https://openalex.org/I4210103779"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063813481","display_name":"Alexander Woodward","orcid":"https://orcid.org/0000-0003-3068-1401"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Alexander Woodward","raw_affiliation_strings":["Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047114006","display_name":"Patrice Delmas","orcid":"https://orcid.org/0000-0002-0235-4596"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]},{"id":"https://openalex.org/I39854758","display_name":"Auckland University of Technology","ror":"https://ror.org/01zvqw119","country_code":"NZ","type":"education","lineage":["https://openalex.org/I39854758"]}],"countries":["NZ"],"is_corresponding":true,"raw_author_name":"Patrice J. Delmas","raw_affiliation_strings":["Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand. p.delmas@auckland.ac.nz","Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand. p.delmas@auckland.ac.nz","institution_ids":["https://openalex.org/I154130895","https://openalex.org/I39854758"]},{"raw_affiliation_string":"Intelligent Vision Systems Lab, The University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5047114006"],"corresponding_institution_ids":["https://openalex.org/I154130895","https://openalex.org/I39854758"],"apc_list":{"value":3190,"currency":"EUR","value_usd":4190},"apc_paid":{"value":3190,"currency":"EUR","value_usd":4190},"fwci":1.5574,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.8612524,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":97},"biblio":{"volume":"22","issue":"4","first_page":"745","last_page":"761"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9969000220298767,"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"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9969000220298767,"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/T10241","display_name":"Functional Brain Connectivity Studies","score":0.9954000115394592,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11304","display_name":"Advanced Neuroimaging Techniques and Applications","score":0.9900000095367432,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6927528381347656},{"id":"https://openalex.org/keywords/cytoarchitecture","display_name":"Cytoarchitecture","score":0.578210711479187},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5710378885269165},{"id":"https://openalex.org/keywords/cortex","display_name":"Cortex (anatomy)","score":0.45328477025032043},{"id":"https://openalex.org/keywords/cerebral-cortex","display_name":"Cerebral cortex","score":0.42823830246925354},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3940424919128418},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3571240305900574},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.25574517250061035},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20491483807563782}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6927528381347656},{"id":"https://openalex.org/C163895629","wikidata":"https://www.wikidata.org/wiki/Q3009543","display_name":"Cytoarchitecture","level":2,"score":0.578210711479187},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5710378885269165},{"id":"https://openalex.org/C2777348757","wikidata":"https://www.wikidata.org/wiki/Q2346577","display_name":"Cortex (anatomy)","level":2,"score":0.45328477025032043},{"id":"https://openalex.org/C2781041448","wikidata":"https://www.wikidata.org/wiki/Q75839","display_name":"Cerebral cortex","level":2,"score":0.42823830246925354},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3940424919128418},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3571240305900574},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.25574517250061035},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20491483807563782}],"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":"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":"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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002144","descriptor_name":"Callithrix","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D002540","descriptor_name":"Cerebral Cortex","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013194","descriptor_name":"Staining and Labeling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013194","descriptor_name":"Staining and Labeling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051078","descriptor_name":"Platyrrhini","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051078","descriptor_name":"Platyrrhini","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1007/s12021-024-09688-0","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-024-09688-0","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-024-09688-0.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Neuroinformatics","raw_type":"journal-article"},{"id":"pmid:39417954","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39417954","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":"Neuroinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11579130","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11579130","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11579130/pdf/12021_2024_Article_9688.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":"Neuroinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1007/s12021-024-09688-0","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-024-09688-0","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-024-09688-0.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Neuroinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320801","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4403510293.pdf","grobid_xml":"https://content.openalex.org/works/W4403510293.grobid-xml"},"referenced_works_count":50,"referenced_works":["https://openalex.org/W642787024","https://openalex.org/W1504644673","https://openalex.org/W1901129140","https://openalex.org/W1909740415","https://openalex.org/W2037192432","https://openalex.org/W2057727798","https://openalex.org/W2067966687","https://openalex.org/W2090955644","https://openalex.org/W2135780839","https://openalex.org/W2153431772","https://openalex.org/W2159500608","https://openalex.org/W2162020807","https://openalex.org/W2504526017","https://openalex.org/W2517954747","https://openalex.org/W2528576169","https://openalex.org/W2529434361","https://openalex.org/W2605287558","https://openalex.org/W2617885424","https://openalex.org/W2734822889","https://openalex.org/W2749595928","https://openalex.org/W2786872228","https://openalex.org/W2804460770","https://openalex.org/W2953192410","https://openalex.org/W2955268453","https://openalex.org/W2962870549","https://openalex.org/W2996931055","https://openalex.org/W3014930333","https://openalex.org/W3014974815","https://openalex.org/W3021989357","https://openalex.org/W3034757956","https://openalex.org/W3046999841","https://openalex.org/W3081603627","https://openalex.org/W3111895056","https://openalex.org/W3112701542","https://openalex.org/W3134576218","https://openalex.org/W4283160212","https://openalex.org/W4284883385","https://openalex.org/W4295940597","https://openalex.org/W4300912893","https://openalex.org/W4319792695","https://openalex.org/W4327810203","https://openalex.org/W4360792131","https://openalex.org/W4362609053","https://openalex.org/W4389488192","https://openalex.org/W4390769068","https://openalex.org/W4391756091","https://openalex.org/W4392198237","https://openalex.org/W4402533730","https://openalex.org/W6635652109","https://openalex.org/W6803356969"],"related_works":["https://openalex.org/W2108353721","https://openalex.org/W2463107492","https://openalex.org/W3200126700","https://openalex.org/W2057786734","https://openalex.org/W4230325379","https://openalex.org/W2006258634","https://openalex.org/W2183193375","https://openalex.org/W2410887630","https://openalex.org/W646223301","https://openalex.org/W2200535317"],"abstract_inverted_index":{"Abstract":[0],"Characterizing":[1],"the":[2,16,21,29,38,63,69,79,82,99,116,161,168,173,178,204],"anatomical":[3],"structure":[4,58],"and":[5,23,59,74],"connectivity":[6,64],"between":[7],"cortical":[8,117,132,162,199],"regions":[9],"is":[10,42,52,88,94],"a":[11,89,109,124,136,224,258],"critical":[12],"step":[13],"towards":[14],"understanding":[15,55],"information":[17],"processing":[18],"properties":[19],"of":[20,31,37,66,78,81,105,139,177,243,261],"brain":[22,80],"will":[24],"help":[25,61],"provide":[26],"insight":[27],"into":[28],"nature":[30],"neurological":[32],"disorders.":[33],"A":[34],"key":[35],"feature":[36],"mammalian":[39],"cerebral":[40,131],"cortex":[41,180],"its":[43],"laminar":[44],"structure.":[45],"Identifying":[46],"these":[47],"layers":[48],"in":[49,68,98,167,328],"neuroimaging":[50],"data":[51],"important":[53],"for":[54,160],"their":[56,289,329],"global":[57],"to":[60,129,219],"understand":[62],"patterns":[65],"neurons":[67],"brain.":[70],"We":[71,107,134,196,222,280],"studied":[72],"Nissl-stained":[73],"myelin-stained":[75],"slice":[76],"images":[77],"common":[83],"marmoset":[84],"(Callithrix":[85],"jacchus),":[86],"which":[87,165],"new":[90],"world":[91],"monkey":[92],"that":[93,113],"becoming":[95],"increasingly":[96],"popular":[97],"neuroscience":[100],"community":[101],"as":[102],"an":[103],"object":[104],"study.":[106],"present":[108],"novel":[110],"computational":[111],"framework":[112],"first":[114],"acquired":[115,312],"labels":[118,163],"using":[119,288],"AI-based":[120],"tools":[121],"followed":[122],"by":[123,171,207],"trained":[125],"deep":[126],"learning":[127],"model":[128],"segment":[130],"layers.":[133],"obtained":[135,223,275],"Euclidean":[137,175],"distance":[138,176,241],"$$\\varvec{1274.750":[140],"\\pm":[141],"156.400}$$":[142],"<mml:math":[143,153,186,228,247,265,303,319],"xmlns:mml=\"http://www.w3.org/1998/Math/MathML\">":[144,154,187,229,248,266,304,320],"<mml:mrow>":[145,155,188,230,233,249,267,305,321],"<mml:mn>1274.750</mml:mn>":[146],"<mml:mo>\u00b1</mml:mo>":[147],"<mml:mn>156.400</mml:mn>":[148],"</mml:mrow>":[149,158,193,235,237,254,272,308,324],"</mml:math>":[150,159,194,238,255,273,309,325],"$$\\varvec{\\mu":[151],"m}$$":[152,185,246,264],"<mml:mi>\u03bc</mml:mi>":[156,191,252,270],"<mml:mi>m</mml:mi>":[157,192,253,271],"acquisition,":[164],"was":[166,274,326],"acceptable":[169],"range":[170],"computing":[172],"half":[174],"average":[179],"thickness":[181],"(":[182,211],"$$\\varvec{1800.630~":[183],"\\mu":[184,245,263],"<mml:mn>1800.630</mml:mn>":[189],"<mml:mspace/>":[190,251,269],").":[195],"compared":[197,282],"our":[198,283,314],"layer":[200],"segmentation":[201,299],"pipeline":[202,205],"with":[203],"proposed":[206],"Wagstyl":[208,277],"et":[209,278],"al.":[210,279],"PLoS":[212],"biology,":[213],"18":[214],"(4),":[215],"e3000678":[216],"2020)":[217],"adapted":[218],"2D":[220],"data.":[221],"better":[225,298],"mean":[226,259],"$$\\varvec{95^{th}}$$":[227],"<mml:msup>":[231],"<mml:mn>95</mml:mn>":[232],"<mml:mi>th</mml:mi>":[234],"</mml:msup>":[236],"percentile":[239],"Hausdorff":[240],"(95HD)":[242],"$$\\varvec{92.150~":[244],"<mml:mn>92.150</mml:mn>":[250],".":[256],"Whereas":[257],"95HD":[260],"$$\\varvec{94.170~":[262],"<mml:mn>94.170</mml:mn>":[268],"from":[276,313],"also":[281,296],"pipeline\u2019s":[284],"performance":[285],"against":[286],"theirs":[287],"dataset":[290],"(the":[291],"BigBrain":[292],"dataset).":[293],"The":[294],"results":[295],"showed":[297],"quality,":[300],"$$\\varvec{85.318":[301],"\\%}$$":[302,318],"<mml:mn>85.318</mml:mn>":[306],"<mml:mo>%</mml:mo>":[307,323],"Jaccard":[310],"Index":[311],"pipeline,":[315],"while":[316],"$$\\varvec{83.000":[317],"<mml:mn>83.000</mml:mn>":[322],"stated":[327],"paper.":[330]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-07-08T08:33:18.762332","created_date":"2025-10-10T00:00:00"}
