{"id":"https://openalex.org/W3130872756","doi":"https://doi.org/10.1117/12.2581795","title":"In silico multi-compartment detection based on multiplex immunohistochemical staining in renal pathology","display_name":"In silico multi-compartment detection based on multiplex immunohistochemical staining in renal pathology","publication_year":2021,"publication_date":"2021-02-12","ids":{"openalex":"https://openalex.org/W3130872756","doi":"https://doi.org/10.1117/12.2581795","mag":"3130872756","pmid":"https://pubmed.ncbi.nlm.nih.gov/34366541"},"language":"en","primary_location":{"id":"doi:10.1117/12.2581795","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2581795","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2021: Digital Pathology","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8341095","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048109211","display_name":"Kuang\u2010Yu Jen","orcid":"https://orcid.org/0000-0003-2815-5912"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kuang-Yu Jen","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","Univ. of California, Davis (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California, Davis (United States)","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110671845","display_name":"Leema Krishna Murali","orcid":null},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Leema Krishna Murali","raw_affiliation_strings":["Department of Biomedical Engineering, SUNY Buffalo","Univ. at Buffalo (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"Univ. at Buffalo (United States)","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029931168","display_name":"Brendon Lutnick","orcid":"https://orcid.org/0000-0001-7360-3302"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brendon Lutnick","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","Univ. at Buffalo (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"Univ. at Buffalo (United States)","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041397853","display_name":"Brandon Ginley","orcid":null},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brandon Ginley","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","Univ. at Buffalo (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"Univ. at Buffalo (United States)","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102941048","display_name":"Darshana Govind","orcid":"https://orcid.org/0000-0001-7779-4994"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Darshana Govind","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","Univ. at Buffalo (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"Univ. at Buffalo (United States)","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076644399","display_name":"Hidetoshi Mori","orcid":"https://orcid.org/0000-0002-5950-281X"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]},{"id":"https://openalex.org/I2803209242","display_name":"University of California System","ror":"https://ror.org/00pjdza24","country_code":"US","type":"education","lineage":["https://openalex.org/I2803209242"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hidetoshi Mori","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","Univ. of California (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California (United States)","institution_ids":["https://openalex.org/I2803209242"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101416763","display_name":"Guofeng Gao","orcid":"https://orcid.org/0000-0002-3348-4692"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Guofeng Gao","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","Univ. of California, Davis (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of California, Davis School of Medicine","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California, Davis (United States)","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044061952","display_name":"Pinaki Sarder","orcid":"https://orcid.org/0000-0003-2450-5233"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pinaki Sarder","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","Univ. at Buffalo (United States)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"Univ. at Buffalo (United States)","institution_ids":["https://openalex.org/I63190737"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5048109211"],"corresponding_institution_ids":["https://openalex.org/I84218800"],"apc_list":null,"apc_paid":null,"fwci":0.5599,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.71995497,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11603","issue":null,"first_page":"37","last_page":"37"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9927999973297119,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9927999973297119,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.989300012588501,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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":0.9799000024795532,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/multiplex","display_name":"Multiplex","score":0.7315714359283447},{"id":"https://openalex.org/keywords/immunohistochemistry","display_name":"Immunohistochemistry","score":0.7117729783058167},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.657206118106842},{"id":"https://openalex.org/keywords/h-e-stain","display_name":"H&E stain","score":0.6533083915710449},{"id":"https://openalex.org/keywords/stain","display_name":"Stain","score":0.6421923041343689},{"id":"https://openalex.org/keywords/staining","display_name":"Staining","score":0.5801576375961304},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5309934616088867},{"id":"https://openalex.org/keywords/trichrome","display_name":"Trichrome","score":0.49577221274375916},{"id":"https://openalex.org/keywords/eosin","display_name":"Eosin","score":0.4907292127609253},{"id":"https://openalex.org/keywords/gold-standard","display_name":"Gold standard (test)","score":0.4479474723339081},{"id":"https://openalex.org/keywords/digital-pathology","display_name":"Digital pathology","score":0.4382185935974121},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4155583381652832},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.17243176698684692},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1379939615726471}],"concepts":[{"id":"https://openalex.org/C2781188995","wikidata":"https://www.wikidata.org/wiki/Q6934982","display_name":"Multiplex","level":2,"score":0.7315714359283447},{"id":"https://openalex.org/C204232928","wikidata":"https://www.wikidata.org/wiki/Q899285","display_name":"Immunohistochemistry","level":2,"score":0.7117729783058167},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.657206118106842},{"id":"https://openalex.org/C125473707","wikidata":"https://www.wikidata.org/wiki/Q9914","display_name":"H&E stain","level":3,"score":0.6533083915710449},{"id":"https://openalex.org/C2781294515","wikidata":"https://www.wikidata.org/wiki/Q2733470","display_name":"Stain","level":3,"score":0.6421923041343689},{"id":"https://openalex.org/C74864618","wikidata":"https://www.wikidata.org/wiki/Q2332446","display_name":"Staining","level":2,"score":0.5801576375961304},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5309934616088867},{"id":"https://openalex.org/C59469219","wikidata":"https://www.wikidata.org/wiki/Q7841079","display_name":"Trichrome","level":4,"score":0.49577221274375916},{"id":"https://openalex.org/C2779751288","wikidata":"https://www.wikidata.org/wiki/Q422637","display_name":"Eosin","level":3,"score":0.4907292127609253},{"id":"https://openalex.org/C40993552","wikidata":"https://www.wikidata.org/wiki/Q514654","display_name":"Gold standard (test)","level":2,"score":0.4479474723339081},{"id":"https://openalex.org/C2777522853","wikidata":"https://www.wikidata.org/wiki/Q5276128","display_name":"Digital pathology","level":2,"score":0.4382185935974121},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4155583381652832},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.17243176698684692},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1379939615726471},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1117/12.2581795","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2581795","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2021: Digital Pathology","raw_type":"proceedings-article"},{"id":"pmid:34366541","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34366541","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":"Proceedings of SPIE--the International Society for Optical Engineering","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8341095","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8341095","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc SPIE Int Soc Opt Eng","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8341095","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8341095","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc SPIE Int Soc Opt Eng","raw_type":"Text"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.5099999904632568}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":4,"referenced_works":["https://openalex.org/W2092772483","https://openalex.org/W2512227072","https://openalex.org/W2750023899","https://openalex.org/W3017374234"],"related_works":["https://openalex.org/W2992854078","https://openalex.org/W2059128522","https://openalex.org/W4311305828","https://openalex.org/W4310665281","https://openalex.org/W4384826841","https://openalex.org/W4390098721","https://openalex.org/W2410331801","https://openalex.org/W1983689531","https://openalex.org/W4401480962","https://openalex.org/W4247872249"],"abstract_inverted_index":{"mIHC":[0,22,113],"images":[1,4,23],"from":[2,73],"brightfield":[3,37],"of":[5,34,50,100,110],"tissue":[6,39,75,87],"slides-stained":[7],"with":[8,42],"routinely":[9],"used":[10,92],"histochemical":[11,44],"stains,":[12],"in":[13,36,58],"particular":[14],"PAS.":[15],"Our":[16,77],"tool":[17],"was":[18],"trained":[19],"using":[20],"fluorescence-based":[21],"as":[24,93],"the":[25,48,107],"ground-truth.":[26],"The":[27],"proposed":[28],"pipeline":[29,52],"offers":[30],"high":[31],"contrast":[32],"detection":[33],"structures":[35,85,102],"imaged":[38],"sections":[40],"stained":[41],"standard":[43],"stains.":[45],"We":[46],"demonstrate":[47],"performance":[49],"our":[51],"by":[53],"computationally":[54],"detecting":[55],"multiple":[56],"compartments":[57],"kidney":[59],"biopsies,":[60],"including":[61],"cell":[62,104],"nuclei,":[63],"collagen/fibrosis,":[64],"distal":[65],"tubules,":[66,68],"proximal":[67],"endothelial":[69],"cells,":[70],"and":[71,86,89,103],"leukocytes,":[72],"PAS-stained":[74],"sections.":[76],"work":[78],"can":[79,90],"be":[80,91],"extended":[81],"for":[82,96],"other":[83],"histologic":[84,101],"types":[88,105],"a":[94],"basis":[95],"future":[97],"automated":[98],"annotation":[99],"without":[106],"added":[108],"cost":[109],"actually":[111],"generating":[112],"slides.":[114]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-28T14:05:53.105641","created_date":"2025-10-10T00:00:00"}