{"id":"https://openalex.org/W3131257600","doi":"https://doi.org/10.1117/12.2581383","title":"User friendly, cloud based, whole slide image segmentation","display_name":"User friendly, cloud based, whole slide image segmentation","publication_year":2021,"publication_date":"2021-02-13","ids":{"openalex":"https://openalex.org/W3131257600","doi":"https://doi.org/10.1117/12.2581383","mag":"3131257600","pmid":"https://pubmed.ncbi.nlm.nih.gov/34366542"},"language":"en","primary_location":{"id":"doi:10.1117/12.2581383","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2581383","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/8341567","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029931168","display_name":"Brendon Lutnick","orcid":"https://orcid.org/0000-0001-7360-3302"},"institutions":[{"id":"https://openalex.org/I115441956","display_name":"Buffalo State University","ror":"https://ror.org/05ms04m92","country_code":"US","type":"education","lineage":["https://openalex.org/I115441956"]},{"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":true,"raw_author_name":"Brendon Lutnick","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","SUNY Buffalo (United States)"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"SUNY Buffalo (United States)","institution_ids":["https://openalex.org/I115441956","https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010795089","display_name":"Avinash Kammardi Shashiprakash","orcid":null},"institutions":[{"id":"https://openalex.org/I115441956","display_name":"Buffalo State University","ror":"https://ror.org/05ms04m92","country_code":"US","type":"education","lineage":["https://openalex.org/I115441956"]},{"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":"Avinash Kammardi Shashiprakash","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","SUNY Buffalo (United States)"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"SUNY Buffalo (United States)","institution_ids":["https://openalex.org/I115441956","https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047071732","display_name":"David Manthey","orcid":"https://orcid.org/0000-0002-4580-8770"},"institutions":[{"id":"https://openalex.org/I74786994","display_name":"Kitware (United States)","ror":"https://ror.org/02s2acn37","country_code":"US","type":"company","lineage":["https://openalex.org/I74786994"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Manthey","raw_affiliation_strings":["Kitware Incorporated, Clifton Park, New York","Kitware, Inc. (United States)"],"affiliations":[{"raw_affiliation_string":"Kitware Incorporated, Clifton Park, New York","institution_ids":["https://openalex.org/I74786994"]},{"raw_affiliation_string":"Kitware, Inc. (United States)","institution_ids":["https://openalex.org/I74786994"]}]},{"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"]},{"id":"https://openalex.org/I115441956","display_name":"Buffalo State University","ror":"https://ror.org/05ms04m92","country_code":"US","type":"education","lineage":["https://openalex.org/I115441956"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pinaki Sarder","raw_affiliation_strings":["Department of Pathology and Anatomical Sciences, SUNY Buffalo","SUNY  Buffalo (United States)"],"affiliations":[{"raw_affiliation_string":"Department of Pathology and Anatomical Sciences, SUNY Buffalo","institution_ids":[]},{"raw_affiliation_string":"SUNY  Buffalo (United States)","institution_ids":["https://openalex.org/I115441956","https://openalex.org/I63190737"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5029931168"],"corresponding_institution_ids":["https://openalex.org/I115441956","https://openalex.org/I63190737"],"apc_list":null,"apc_paid":null,"fwci":1.2599,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.83233231,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"11603","issue":null,"first_page":null,"last_page":null},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9161999821662903,"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/plug-in","display_name":"Plug-in","score":0.9313881397247314},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8883239030838013},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.7398648262023926},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.6825218796730042},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.6791751384735107},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.6461992263793945},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.531428337097168},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.5026726722717285},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4875950217247009},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.445879191160202},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.4319648742675781},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4190841317176819},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4104013442993164},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.3661033511161804},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.19721880555152893},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.19431167840957642}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.9313881397247314},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8883239030838013},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.7398648262023926},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.6825218796730042},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.6791751384735107},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.6461992263793945},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.531428337097168},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.5026726722717285},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4875950217247009},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.445879191160202},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.4319648742675781},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4190841317176819},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4104013442993164},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.3661033511161804},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.19721880555152893},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.19431167840957642}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1117/12.2581383","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2581383","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:34366542","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34366542","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:8341567","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8341567","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:8341567","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8341567","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","score":0.5199999809265137,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":5,"referenced_works":["https://openalex.org/W2592662298","https://openalex.org/W2765774350","https://openalex.org/W2971487518","https://openalex.org/W3012728984","https://openalex.org/W3102660688"],"related_works":["https://openalex.org/W4321505103","https://openalex.org/W2367815957","https://openalex.org/W3180179400","https://openalex.org/W2118366689","https://openalex.org/W2624709009","https://openalex.org/W2154998455","https://openalex.org/W2116888309","https://openalex.org/W2477652530","https://openalex.org/W2039055059","https://openalex.org/W2381088774"],"abstract_inverted_index":{"Convolutional":[0],"neural":[1,80],"networks,":[2],"the":[3,6,23,37,44,49,87,94,123,147,160,166],"state":[4],"of":[5,25,43,61,84,168,175],"art":[7],"for":[8,59,82,113],"image":[9],"segmentation,":[10],"have":[11,55,178],"been":[12],"successfully":[13],"applied":[14,164],"to":[15,28,36,69,118,137,162,165,181],"histology":[16],"images":[17,64],"by":[18,99,129],"many":[19],"computational":[20,130],"researchers.":[21],"However,":[22],"translatability":[24],"this":[26,120],"technology":[27],"clinicians":[29],"and":[30,39,110,145,156],"biological":[31],"researchers":[32],"is":[33,91,143,153],"limited":[34],"due":[35],"complex":[38],"undeveloped":[40],"user":[41,72],"interface":[42],"code,":[45],"as":[46,48],"well":[47],"extensive":[50],"computer":[51],"setup":[52],"required.":[53],"We":[54],"developed":[56],"a":[57,77,138,173],"plugin":[58,75,90,142,152],"segmentation":[60,83,148,167],"whole":[62],"slide":[63],"(WSIs)":[65],"with":[66],"an":[67],"easy":[68],"use":[70,128],"graphical":[71],"interface.":[73],"This":[74,151],"runs":[76],"state-of-the-art":[78],"convolutional":[79],"network":[81],"WSIs":[85],"in":[86],"cloud.":[88],"Our":[89],"built":[92],"on":[93,190],"open":[95,154],"source":[96,155],"tool":[97,121],"HistomicsTK":[98],"Kitware":[100],"Inc.":[101],"(Clifton":[102],"Park,":[103],"NY),":[104],"which":[105],"provides":[106],"remote":[107],"data":[108],"management":[109],"viewing":[111],"abilities":[112],"WSI":[114],"datasets.":[115],"The":[116],"ability":[117,161],"access":[119],"over":[122],"internet":[124],"will":[125],"facilitate":[126],"widespread":[127],"non-experts.":[131],"Users":[132],"can":[133],"easily":[134],"upload":[135],"slides":[136],"server":[139],"where":[140],"our":[141],"installed":[144],"perform":[146],"analysis":[149],"remotely.":[150],"once":[157],"trained,":[158],"has":[159],"be":[163],"any":[169],"pathological":[170],"structure.":[171],"For":[172],"proof":[174],"concept,":[176],"we":[177],"trained":[179],"it":[180,189],"segment":[182],"glomeruli":[183],"from":[184],"renal":[185],"tissue":[186,192],"images,":[187],"demonstrating":[188],"holdout":[191],"slides.":[193]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":4}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
