{"id":"https://openalex.org/W3007926882","doi":"https://doi.org/10.1117/12.2549801","title":"Deep learning based multi-organ segmentation and metastases segmentation in whole mouse body and the cryo-imaging cancer imaging and therapy analysis platform (CITAP)","display_name":"Deep learning based multi-organ segmentation and metastases segmentation in whole mouse body and the cryo-imaging cancer imaging and therapy analysis platform (CITAP)","publication_year":2020,"publication_date":"2020-02-28","ids":{"openalex":"https://openalex.org/W3007926882","doi":"https://doi.org/10.1117/12.2549801","mag":"3007926882"},"language":"en","primary_location":{"id":"doi:10.1117/12.2549801","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2549801","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2020: Biomedical Applications in Molecular, Structural, and Functional Imaging","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5064649257","display_name":"Yiqiao Liu","orcid":"https://orcid.org/0000-0003-1071-5475"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yiqiao Liu","raw_affiliation_strings":["Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046799192","display_name":"Madhu Gargesha","orcid":null},"institutions":[{"id":"https://openalex.org/I4210137621","display_name":"BioInVision (United States)","ror":"https://ror.org/04apsy796","country_code":"US","type":"company","lineage":["https://openalex.org/I4210137621"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Madhu Gargesha","raw_affiliation_strings":["BioInVision, Inc. (United States)"],"affiliations":[{"raw_affiliation_string":"BioInVision, Inc. (United States)","institution_ids":["https://openalex.org/I4210137621"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003306597","display_name":"Mohammed Qutaish","orcid":"https://orcid.org/0000-0002-6707-2872"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammed Qutaish","raw_affiliation_strings":["Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044430936","display_name":"Zhuxian Zhou","orcid":"https://orcid.org/0000-0002-7104-9915"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhuxian Zhou","raw_affiliation_strings":["Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047941347","display_name":"Bryan Scott","orcid":null},"institutions":[{"id":"https://openalex.org/I4210137621","display_name":"BioInVision (United States)","ror":"https://ror.org/04apsy796","country_code":"US","type":"company","lineage":["https://openalex.org/I4210137621"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bryan Scott","raw_affiliation_strings":["BioInVision, Inc. (United States)"],"affiliations":[{"raw_affiliation_string":"BioInVision, Inc. (United States)","institution_ids":["https://openalex.org/I4210137621"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101442789","display_name":"Hamed Yousefi","orcid":"https://orcid.org/0000-0001-9334-4272"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hamed Yousefi","raw_affiliation_strings":["Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012355912","display_name":"Zheng\u2010Rong Lu","orcid":"https://orcid.org/0000-0001-8185-9519"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhengrong Lu","raw_affiliation_strings":["Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059314323","display_name":"David L. Wilson","orcid":"https://orcid.org/0000-0001-9763-1463"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]},{"id":"https://openalex.org/I4210137621","display_name":"BioInVision (United States)","ror":"https://ror.org/04apsy796","country_code":"US","type":"company","lineage":["https://openalex.org/I4210137621"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David L. Wilson","raw_affiliation_strings":["BioInVision, Inc. (United States)","Case Western Reserve Univ. (United States)"],"affiliations":[{"raw_affiliation_string":"BioInVision, Inc. (United States)","institution_ids":["https://openalex.org/I4210137621"]},{"raw_affiliation_string":"Case Western Reserve Univ. (United States)","institution_ids":["https://openalex.org/I58956616"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5064649257"],"corresponding_institution_ids":["https://openalex.org/I58956616"],"apc_list":null,"apc_paid":null,"fwci":1.662,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.86313246,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"30","last_page":"30"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9538999795913696,"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":0.9538999795913696,"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/segmentation","display_name":"Segmentation","score":0.6950989961624146},{"id":"https://openalex.org/keywords/blob-detection","display_name":"Blob detection","score":0.5870406031608582},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5702397227287292},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.5000684261322021},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4882636070251465},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.487796813249588},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.39975032210350037},{"id":"https://openalex.org/keywords/image-processing","display_name":"Image processing","score":0.32922112941741943},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.32909244298934937},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.3276451826095581},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2572559714317322},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.09052899479866028}],"concepts":[{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.6950989961624146},{"id":"https://openalex.org/C29168087","wikidata":"https://www.wikidata.org/wiki/Q1026711","display_name":"Blob detection","level":5,"score":0.5870406031608582},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5702397227287292},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.5000684261322021},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4882636070251465},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.487796813249588},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.39975032210350037},{"id":"https://openalex.org/C9417928","wikidata":"https://www.wikidata.org/wiki/Q1070689","display_name":"Image processing","level":3,"score":0.32922112941741943},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.32909244298934937},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.3276451826095581},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2572559714317322},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.09052899479866028},{"id":"https://openalex.org/C193536780","wikidata":"https://www.wikidata.org/wiki/Q1513153","display_name":"Edge detection","level":4,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1117/12.2549801","is_oa":false,"landing_page_url":"https://doi.org/10.1117/12.2549801","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Medical Imaging 2020: Biomedical Applications in Molecular, Structural, and Functional Imaging","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.6200000047683716}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W1669643531","https://openalex.org/W2122581818","https://openalex.org/W2159066190","https://openalex.org/W2739874619","https://openalex.org/W2117933325","https://openalex.org/W2110230079","https://openalex.org/W2117664411","https://openalex.org/W1507266234","https://openalex.org/W1967061043","https://openalex.org/W2549936415"],"abstract_inverted_index":{"We":[0,58,111],"are":[1],"creating":[2],"a":[3,52,164],"cancer":[4,23,127],"imaging":[5,45],"and":[6,15,28,40,90,100,109,136,144,179,189,222,227,237,247],"therapy":[7],"analysis":[8],"platform":[9],"(CITAP),":[10],"featuring":[11],"image":[12],"analysis/visualization":[13],"software":[14],"multi-spectral":[16],"cryo-imaging":[17],"to":[18,70],"support":[19],"innovations":[20],"in":[21,102,129,201,244],"preclinical":[22],"research.":[24],"Cryo-imaging":[25],"repeatedly":[26],"sections":[27],"tiles":[29],"microscope":[30],"images":[31,69],"of":[32,115,121,147,187,198,204],"the":[33,103,207,245],"tissue":[34],"block":[35],"face,":[36],"providing":[37],"color":[38,67,82],"anatomy":[39,68,83],"molecular":[41],"fluorescence":[42,133],"3D":[43,165],"microscopic":[44],"over":[46],"vast":[47],"volumes":[48,84],"as":[49,51],"large":[50],"whole":[53],"mouse,":[54],"with":[55,85,163,174,182,210,215,219,224,230,234,239],"single-metastatic-cell":[56],"sensitivity.":[57],"utilized":[59],"DenseVNet":[60],"from":[61],"NiftyNet":[62],"for":[63,97,118],"multi-organ":[64],"segmentation":[65,153,194],"on":[66,80],"further":[71],"analyze":[72],"major":[73],"organs.":[74],"The":[75,92],"proposed":[76],"algorithm":[77],"was":[78,161],"trained/validated/tested":[79],"70/5/4":[81],"manually":[86],"labeled":[87],"lung,":[88,98],"liver,":[89,99],"spleen.":[91],"mean":[93],"Dice":[94,113],"similarity":[95],"coefficient":[96,114],"spleen":[101],"test":[104,172,208],"set":[105],"were":[106,139,242],"0.89\u00b10.01,":[107],"0.92\u00b10.01,":[108],"0.83\u00b10.04.":[110],"deem":[112],"&lt;0.9":[116],"good":[117],"analyzing":[119],"distribution":[120],"metastases.":[122],"To":[123],"segment":[124],"GFP-labeled":[125,199],"breast":[126],"metastases":[128,200],"high":[130],"resolution":[131],"green":[132],"images,":[134],"big":[135],"small":[137],"candidates":[138],"segmented":[140],"using":[141],"marker-based":[142],"watershed":[143],"multi-scale":[145],"Laplacian":[146],"Gaussian":[148],"filtering":[149],"followed":[150],"by":[151],"Otsu":[152],"respectively.":[154,191,249],"A":[155],"bounding":[156],"box":[157],"around":[158],"each":[159,202],"candidate":[160],"classified":[162],"convolutional":[166],"neural":[167],"network":[168],"(CNN).":[169],"In":[170,206],"one":[171],"mouse":[173,209],"226":[175,211],"metastases,":[176,212],"CNNbased":[177],"classification":[178],"random":[180],"forest":[181],"hand-crafted":[183],"features":[184],"achieved":[185],"sensitivity/specificity":[186],"0.95/0.89":[188],"0.92/0.82,":[190],"DenseVNet-based":[192],"organ":[193,203],"allows":[195],"automatic":[196],"quantification":[197],"interest.":[205],"78":[213],"(1":[214,229],"size":[216,220,225,231,235,240],"&lt;2mm,":[217,232],"21":[218],"0.5mm-2mm,":[221],"56":[223],"&lt;0.5mm)":[226,241],"24":[228],"11":[233],"0.5-2mm,":[236],"12":[238],"found":[243],"lung":[246],"liver":[248]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
