{"id":"https://openalex.org/W2205539221","doi":"https://doi.org/10.1109/tmi.2015.2497285","title":"Automatic Stem Cell Detection in Microscopic Whole Mouse Cryo-Imaging","display_name":"Automatic Stem Cell Detection in Microscopic Whole Mouse Cryo-Imaging","publication_year":2015,"publication_date":"2015-11-02","ids":{"openalex":"https://openalex.org/W2205539221","doi":"https://doi.org/10.1109/tmi.2015.2497285","mag":"2205539221","pmid":"https://pubmed.ncbi.nlm.nih.gov/26552080"},"language":"en","primary_location":{"id":"doi:10.1109/tmi.2015.2497285","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tmi.2015.2497285","pdf_url":null,"source":{"id":"https://openalex.org/S58069681","display_name":"IEEE Transactions on Medical Imaging","issn_l":"0278-0062","issn":["0278-0062","1558-254X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Medical Imaging","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5053560180","display_name":"Patiwet Wuttisarnwattana","orcid":"https://orcid.org/0000-0002-2687-3606"},"institutions":[{"id":"https://openalex.org/I48076826","display_name":"Chiang Mai University","ror":"https://ror.org/05m2fqn25","country_code":"TH","type":"education","lineage":["https://openalex.org/I48076826"]}],"countries":["TH"],"is_corresponding":false,"raw_author_name":"Patiwet Wuttisarnwattana","raw_affiliation_strings":["Chiang Mai University, Biomedical Engineering Center, Chiang Mai, Thailand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chiang Mai University, Biomedical Engineering Center, Chiang Mai, Thailand","institution_ids":["https://openalex.org/I48076826"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017515618","display_name":"Madhusudhana 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":"Madhusudhana Gargesha","raw_affiliation_strings":["BioInVision, Inc., Mayfield Village, OH, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioInVision, Inc., Mayfield Village, OH, USA","institution_ids":["https://openalex.org/I4210137621"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040192033","display_name":"Wouter Van\u2019t Hof","orcid":"https://orcid.org/0000-0002-1251-0441"},"institutions":[{"id":"https://openalex.org/I4210155025","display_name":"Cleveland Cord Blood Center","ror":"https://ror.org/05m4e6y57","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210155025"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wouter van't Hof","raw_affiliation_strings":["Cell Processing Facility, Cleveland Cord Blood Center, Cleveland, OH, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cell Processing Facility, Cleveland Cord Blood Center, Cleveland, OH, USA","institution_ids":["https://openalex.org/I4210155025"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040158605","display_name":"Kenneth R. Cooke","orcid":"https://orcid.org/0000-0002-0275-6931"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kenneth R. Cooke","raw_affiliation_strings":["Department of Pediatric Oncology, Johns Hopkins University, Baltimore, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatric Oncology, Johns Hopkins University, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]}]},{"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/I2799343972","display_name":"University Hospitals of Cleveland","ror":"https://ror.org/0130jk839","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799343972"]},{"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"]},{"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":"David L. Wilson","raw_affiliation_strings":["BioInVision, Inc., Mayfield Village, OH, USA","Department of Biomedical Engineering, Case Western Reserve University, Cleveland, OH, USA","Department of Radiology, University Hospitals of Cleveland, Cleveland, OH, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioInVision, Inc., Mayfield Village, OH, USA","institution_ids":["https://openalex.org/I4210137621"]},{"raw_affiliation_string":"Department of Biomedical Engineering, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]},{"raw_affiliation_string":"Department of Radiology, University Hospitals of Cleveland, Cleveland, OH, USA","institution_ids":["https://openalex.org/I2799343972"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.861,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.91340182,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"35","issue":"3","first_page":"819","last_page":"829"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9997000098228455,"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":0.9997000098228455,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9962999820709229,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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/T11190","display_name":"3D Printing in Biomedical Research","score":0.9927999973297119,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6030338406562805},{"id":"https://openalex.org/keywords/pixel","display_name":"Pixel","score":0.5261698961257935},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5160398483276367},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.44432199001312256},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.4401082694530487}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6030338406562805},{"id":"https://openalex.org/C160633673","wikidata":"https://www.wikidata.org/wiki/Q355198","display_name":"Pixel","level":2,"score":0.5261698961257935},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5160398483276367},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.44432199001312256},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.4401082694530487}],"mesh":[{"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":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"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":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013234","descriptor_name":"Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D013234","descriptor_name":"Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D013234","descriptor_name":"Stem Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D014018","descriptor_name":"Tissue Distribution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014018","descriptor_name":"Tissue Distribution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014018","descriptor_name":"Tissue Distribution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051598","descriptor_name":"Whole Body Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051598","descriptor_name":"Whole Body Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051598","descriptor_name":"Whole Body Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1109/tmi.2015.2497285","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tmi.2015.2497285","pdf_url":null,"source":{"id":"https://openalex.org/S58069681","display_name":"IEEE Transactions on Medical Imaging","issn_l":"0278-0062","issn":["0278-0062","1558-254X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Medical Imaging","raw_type":"journal-article"},{"id":"pmid:26552080","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26552080","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":"IEEE transactions on medical imaging","raw_type":null},{"id":"pmh:oai:europepmc.org:4182791","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4873963","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6100000143051147,"id":"https://metadata.un.org/sdg/16","display_name":"Peace, Justice and strong institutions"}],"awards":[{"id":"https://openalex.org/G7578619488","display_name":null,"funder_award_id":"R42-CA124270","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8238041874","display_name":null,"funder_award_id":"R01HL114406","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320308281","display_name":"Ohio Board of Regents","ror":"https://ror.org/00gj19047"},{"id":"https://openalex.org/F4320324279","display_name":"Ministry of Science and Technology of Thailand","ror":"https://ror.org/02nfy5246"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W126375243","https://openalex.org/W1202879735","https://openalex.org/W1503302479","https://openalex.org/W1584308190","https://openalex.org/W1883799289","https://openalex.org/W1963619309","https://openalex.org/W1972988791","https://openalex.org/W1978370369","https://openalex.org/W1978614207","https://openalex.org/W1979043688","https://openalex.org/W1988596999","https://openalex.org/W1996846725","https://openalex.org/W1998746952","https://openalex.org/W2007979740","https://openalex.org/W2016931709","https://openalex.org/W2018688055","https://openalex.org/W2029061296","https://openalex.org/W2033531130","https://openalex.org/W2034241447","https://openalex.org/W2037492592","https://openalex.org/W2037851175","https://openalex.org/W2039836687","https://openalex.org/W2040025264","https://openalex.org/W2042938744","https://openalex.org/W2043550192","https://openalex.org/W2044658066","https://openalex.org/W2049292758","https://openalex.org/W2051953656","https://openalex.org/W2065548150","https://openalex.org/W2071518150","https://openalex.org/W2084904158","https://openalex.org/W2109525793","https://openalex.org/W2120725043","https://openalex.org/W2123924700","https://openalex.org/W2126515582","https://openalex.org/W2127566427","https://openalex.org/W2133628231","https://openalex.org/W2143148937","https://openalex.org/W2145023731","https://openalex.org/W2149048950","https://openalex.org/W2158554506","https://openalex.org/W2163950806","https://openalex.org/W2167439109","https://openalex.org/W2189343552","https://openalex.org/W2260356845","https://openalex.org/W2912934387","https://openalex.org/W3139670284","https://openalex.org/W4212883601","https://openalex.org/W6630094892","https://openalex.org/W6676855864","https://openalex.org/W6687263807"],"related_works":["https://openalex.org/W1549056443","https://openalex.org/W2474469336","https://openalex.org/W2363669182","https://openalex.org/W2126415191","https://openalex.org/W2525150146","https://openalex.org/W1582096518","https://openalex.org/W2090093270","https://openalex.org/W2114889067","https://openalex.org/W3043252291","https://openalex.org/W3154074818"],"abstract_inverted_index":{"With":[0,174],"its":[1],"single":[2,220,232],"cell":[3,20,74,99,111,146,226,233,246],"sensitivity":[4],"over":[5],"volumes":[6],"as":[7,9],"large":[8,44],"or":[10],"larger":[11],"than":[12],"a":[13,31,166,183,238],"mouse,":[14],"cryo-imaging":[15,49],"enables":[16],"imaging":[17],"of":[18,103,107,155,214,241],"stem":[19,40,225],"biodistribution,":[21],"homing,":[22],"engraftment,":[23],"and":[24,29,76,85,127,199,248],"molecular":[25],"mechanisms.":[26],"We":[27],"developed":[28],"evaluated":[30],"highly":[32],"automated":[33],"software":[34],"tool":[35],"to":[36,61,136,140,149,207],"detect":[37],"fluorescently":[38],"labeled":[39],"cells":[41,153,181,215],"within":[42],"very":[43],"(":[45],"\u223c":[46],"200":[47],"GB)":[48],"datasets.":[50],"Cell":[51],"detection":[52,112],"steps":[53],"are:":[54],"preprocess,":[55],"remove":[56],"immaterial":[57],"regions,":[58],"spatially":[59],"filter":[60],"create":[62],"features,":[63],"identify":[64],"candidate":[65],"pixels,":[66],"classify":[67],"pixels":[68],"using":[69],"bagging":[70],"decision":[71],"trees,":[72],"segment":[73],"patches,":[75],"perform":[77],"3D":[78],"labeling.":[79,150],"There":[80],"are":[81],"options":[82],"for":[83,117,122,142,250],"analysis":[84],"visualization.":[86],"To":[87],"train":[88],"the":[89,187],"classifier,":[90],"we":[91,160],"created":[92],"synthetic":[93,118],"images":[94],"by":[95],"placing":[96],"realistic":[97],"digital":[98],"models":[100],"onto":[101],"cryo-images":[102],"control":[104,131],"mice":[105],"devoid":[106],"cells.":[108,221,252],"Very":[109],"good":[110],"results":[113],"were":[114,192],"(precision=98.49%,":[115],"recall=99.97%)":[116],"cryo-images,":[119,126],"(precision=97.81%,":[120],"recall=97.71%)":[121],"manually":[123],"evaluated,":[124],"actual":[125],"false":[128],"positives":[129],"in":[130,145,169,182,186,195,229],"mice.":[132],"An":[133],"\u03b1-multiplier":[134],"applied":[135],"features":[137],"allows":[138],"one":[139],"correct":[141],"experimental":[143],"variations":[144],"brightness":[147],"due":[148],"On":[151],"dim":[152],"(37%":[154],"standard":[156],"brightness),":[157],"with":[158,231],"correction,":[159],"improved":[161],"recall":[162],"(49.26%\u2192":[163],"99.36%)":[164],"without":[165],"significant":[167],"drop":[168],"precision":[170],"(99.99%\u2192":[171],"99.75%)":[172],".":[173],"tail":[175],"vein":[176],"injection,":[177],"multipotent":[178],"adult":[179],"progenitor":[180],"graft-versus-host-disease":[184],"model":[185],"first":[188],"days":[189],"post":[190],"injection":[191],"predominantly":[193],"found":[194],"lung,":[196],"liver,":[197],"spleen,":[198],"bone":[200],"marrow.":[201],"Distribution":[202],"was":[203],"not":[204],"simply":[205],"related":[206],"blood":[208],"flow.":[209],"The":[210],"lung":[211],"contained":[212,219],"clusters":[213],"while":[216],"other":[217],"tissues":[218],"Our":[222],"methods":[223],"provided":[224],"distribution":[227],"anywhere":[228],"mouse":[230],"sensitivity.":[234],"Methods":[235],"should":[236],"provide":[237],"rational":[239],"means":[240],"evaluating":[242],"dosing,":[243],"delivery":[244],"methods,":[245],"enhancements,":[247],"mechanisms":[249],"therapeutic":[251]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
