{"id":"https://openalex.org/W4396591073","doi":"https://doi.org/10.1186/s40537-024-00901-0","title":"Computational 3D topographic microscopy from terabytes of data per sample","display_name":"Computational 3D topographic microscopy from terabytes of data per sample","publication_year":2024,"publication_date":"2024-05-02","ids":{"openalex":"https://openalex.org/W4396591073","doi":"https://doi.org/10.1186/s40537-024-00901-0"},"language":"en","primary_location":{"id":"doi:10.1186/s40537-024-00901-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-00901-0","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-00901-0.pdf","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"is_oa":true,"is_in_doaj":true,"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":"Journal of Big Data","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-00901-0.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006749171","display_name":"Kevin C. Zhou","orcid":"https://orcid.org/0000-0002-0351-8812"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kevin C. Zhou","raw_affiliation_strings":["Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","institution_ids":["https://openalex.org/I170897317"]},{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039541340","display_name":"Mark Harfouche","orcid":"https://orcid.org/0000-0002-4657-4603"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mark Harfouche","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060240932","display_name":"Maxwell Zheng","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Maxwell Zheng","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017464151","display_name":"Joakim J\u00f6nsson","orcid":"https://orcid.org/0000-0003-2670-0366"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joakim J\u00f6nsson","raw_affiliation_strings":["Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","institution_ids":["https://openalex.org/I170897317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103216668","display_name":"Kyung Chul Lee","orcid":"https://orcid.org/0000-0002-5533-3078"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]},{"id":"https://openalex.org/I193775966","display_name":"Yonsei University","ror":"https://ror.org/01wjejq96","country_code":"KR","type":"education","lineage":["https://openalex.org/I193775966"]}],"countries":["KR","US"],"is_corresponding":false,"raw_author_name":"Kyung Chul Lee","raw_affiliation_strings":["Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","School of Electrical and Electronic Engineering, Yonsei University, Seoul, 03722, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","institution_ids":["https://openalex.org/I170897317"]},{"raw_affiliation_string":"School of Electrical and Electronic Engineering, Yonsei University, Seoul, 03722, South Korea","institution_ids":["https://openalex.org/I193775966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005667808","display_name":"Kanghyun Kim","orcid":"https://orcid.org/0000-0002-4557-9525"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kanghyun Kim","raw_affiliation_strings":["Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","institution_ids":["https://openalex.org/I170897317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114156342","display_name":"Ron D. Appel","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ron Appel","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062056167","display_name":"Paul Reamey","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Paul Reamey","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087625474","display_name":"Thomas Jedidiah Jenks Doman","orcid":"https://orcid.org/0009-0009-4114-4362"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Thomas Doman","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071360327","display_name":"Veton Saliu","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Veton Saliu","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016911845","display_name":"Gregor Horstmeyer","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Gregor Horstmeyer","raw_affiliation_strings":["Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089298785","display_name":"Seung Ah Lee","orcid":"https://orcid.org/0000-0001-5173-1565"},"institutions":[{"id":"https://openalex.org/I193775966","display_name":"Yonsei University","ror":"https://ror.org/01wjejq96","country_code":"KR","type":"education","lineage":["https://openalex.org/I193775966"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Seung Ah Lee","raw_affiliation_strings":["School of Electrical and Electronic Engineering, Yonsei University, Seoul, 03722, South Korea"],"affiliations":[{"raw_affiliation_string":"School of Electrical and Electronic Engineering, Yonsei University, Seoul, 03722, South Korea","institution_ids":["https://openalex.org/I193775966"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090462900","display_name":"Roarke Horstmeyer","orcid":"https://orcid.org/0000-0002-2480-9141"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Roarke Horstmeyer","raw_affiliation_strings":["Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Duke University, Durham, NC, 27708, USA","institution_ids":["https://openalex.org/I170897317"]},{"raw_affiliation_string":"Ramona Optics Inc., 1000 W Main St., Durham, NC, 27701, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5006749171"],"corresponding_institution_ids":["https://openalex.org/I170897317"],"apc_list":{"value":1060,"currency":"GBP","value_usd":1300},"apc_paid":{"value":1060,"currency":"GBP","value_usd":1300},"fwci":2.0799,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.87838811,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"11","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10638","display_name":"Optical measurement and interference techniques","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T10638","display_name":"Optical measurement and interference techniques","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T14117","display_name":"Integrated Circuits and Semiconductor Failure Analysis","score":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/2208","display_name":"Electrical and Electronic Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12111","display_name":"Industrial Vision Systems and Defect Detection","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/2209","display_name":"Industrial and Manufacturing 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/terabyte","display_name":"Terabyte","score":0.9737682938575745},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7147486209869385},{"id":"https://openalex.org/keywords/computational-science-and-engineering","display_name":"Computational Science and Engineering","score":0.6780272126197815},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.5438022017478943},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.45429128408432007},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.42728376388549805},{"id":"https://openalex.org/keywords/microscopy","display_name":"Microscopy","score":0.4152262508869171},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.13200068473815918},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.10526403784751892},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.07159039378166199}],"concepts":[{"id":"https://openalex.org/C199683683","wikidata":"https://www.wikidata.org/wiki/Q8799","display_name":"Terabyte","level":2,"score":0.9737682938575745},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7147486209869385},{"id":"https://openalex.org/C68597687","wikidata":"https://www.wikidata.org/wiki/Q362601","display_name":"Computational Science and Engineering","level":2,"score":0.6780272126197815},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.5438022017478943},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.45429128408432007},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.42728376388549805},{"id":"https://openalex.org/C147080431","wikidata":"https://www.wikidata.org/wiki/Q1074953","display_name":"Microscopy","level":2,"score":0.4152262508869171},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.13200068473815918},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.10526403784751892},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.07159039378166199},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1186/s40537-024-00901-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-00901-0","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-00901-0.pdf","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"is_oa":true,"is_in_doaj":true,"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":"Journal of Big Data","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:562f96e1424e430aa5dba35afa44b9d8","is_oa":true,"landing_page_url":"https://doaj.org/article/562f96e1424e430aa5dba35afa44b9d8","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Big Data, Vol 11, Iss 1, Pp 1-17 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s40537-024-00901-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-00901-0","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-00901-0.pdf","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"is_oa":true,"is_in_doaj":true,"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":"Journal of Big Data","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8199999928474426,"display_name":"Sustainable cities and communities","id":"https://metadata.un.org/sdg/11"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4396591073.pdf"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1964758129","https://openalex.org/W1985877371","https://openalex.org/W1990155272","https://openalex.org/W2008756592","https://openalex.org/W2012614492","https://openalex.org/W2013602262","https://openalex.org/W2015573009","https://openalex.org/W2020286945","https://openalex.org/W2035311680","https://openalex.org/W2059342612","https://openalex.org/W2071159235","https://openalex.org/W2072969966","https://openalex.org/W2111426271","https://openalex.org/W2113161393","https://openalex.org/W2125150158","https://openalex.org/W2165235595","https://openalex.org/W2171646521","https://openalex.org/W2187250581","https://openalex.org/W2964013315","https://openalex.org/W3014024198","https://openalex.org/W3039405393","https://openalex.org/W3041814977","https://openalex.org/W3110365712","https://openalex.org/W3142235523","https://openalex.org/W3176035260","https://openalex.org/W3179590979","https://openalex.org/W4206760982","https://openalex.org/W4225358219","https://openalex.org/W4249911582","https://openalex.org/W4311404565","https://openalex.org/W4317569561","https://openalex.org/W4318542712","https://openalex.org/W4319879584","https://openalex.org/W4323316324"],"related_works":["https://openalex.org/W2066858118","https://openalex.org/W2134017072","https://openalex.org/W1976914335","https://openalex.org/W2915208987","https://openalex.org/W2152256925","https://openalex.org/W1940452713","https://openalex.org/W2058150833","https://openalex.org/W2005567565","https://openalex.org/W2806040249","https://openalex.org/W1994777790"],"abstract_inverted_index":{"Abstract":[0],"We":[1,69],"present":[2],"a":[3,37,42,56,63,71,106,138,162],"large-scale":[4],"computational":[5,28,156],"3D":[6,13,77,89],"topographic":[7],"microscope":[8],"that":[9,81],"enables":[10,120],"6-gigapixel":[11],"profilometric":[12,139],"imaging":[14],"at":[15],"micron-scale":[16],"resolution":[17],"across":[18,92],">110":[19],"cm":[20],"2":[21],"areas":[22],"over":[23],"multi-millimeter":[24],"axial":[25],"ranges.":[26],"Our":[27],"microscope,":[29,157],"termed":[30],"STARCAM":[31,160],"(Scanning":[32],"Topographic":[33],"All-in-focus":[34],"Reconstruction":[35],"with":[36,46,167],"Computational":[38],"Array":[39],"Microscope),":[40],"features":[41],"parallelized,":[43],"54-camera":[44],"architecture":[45],"3-axis":[47],"translation":[48],"to":[49,161,173],"capture,":[50],"for":[51,76],"each":[52],"sample":[53],"of":[54,62,65,96,123,143,153,164],"interest,":[55],"multi-dimensional,":[57],"2.1-terabyte":[58],"(TB)":[59],"dataset,":[60],"consisting":[61],"total":[64],"224,640":[66],"9.4-megapixel":[67],"images.":[68],"developed":[70],"self-supervised":[72],"neural":[73,117],"network-based":[74],"algorithm":[75],"reconstruction":[78,130],"and":[79,88,102,141],"stitching":[80],"jointly":[82],"estimates":[83],"an":[84],"all-in-focus":[85],"photometric":[86],"composite":[87],"height":[90],"map":[91],"the":[93,116,124,129,150],"entire":[94,125],"field":[95],"view,":[97],"using":[98],"multi-view":[99],"stereo":[100],"information":[101],"image":[103],"sharpness":[104],"as":[105],"focal":[107],"metric.":[108],"The":[109],"memory-efficient,":[110],"compressed":[111],"differentiable":[112],"representation":[113],"offered":[114],"by":[115],"network":[118],"effectively":[119],"joint":[121],"participation":[122],"multi-TB":[126],"dataset":[127],"during":[128],"process.":[131],"Validation":[132],"experiments":[133],"on":[134],"gauge":[135],"blocks":[136],"demonstrate":[137,149],"precision":[140],"accuracy":[142],"10":[144],"\u00b5m":[145],"or":[146],"better.":[147],"To":[148],"broad":[151],"utility":[152],"our":[154],"new":[155],"we":[158],"applied":[159],"variety":[163],"decimeter-scale":[165],"objects,":[166],"applications":[168],"ranging":[169],"from":[170],"cultural":[171],"heritage":[172],"industrial":[174],"inspection.":[175]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2}],"updated_date":"2026-03-09T08:58:05.943551","created_date":"2025-10-10T00:00:00"}