{"id":"https://openalex.org/W4396912841","doi":"https://doi.org/10.48550/arxiv.2405.06463","title":"MRSegmentator: Multi-Modality Segmentation of 40 Classes in MRI and CT","display_name":"MRSegmentator: Multi-Modality Segmentation of 40 Classes in MRI and CT","publication_year":2024,"publication_date":"2024-05-10","ids":{"openalex":"https://openalex.org/W4396912841","doi":"https://doi.org/10.48550/arxiv.2405.06463"},"language":"en","primary_location":{"id":"pmh:oai:arXiv.org:2405.06463","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2405.06463","pdf_url":"https://arxiv.org/pdf/2405.06463","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},"type":"preprint","indexed_in":["arxiv","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2405.06463","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5097357148","display_name":"Hartmut H\u00e4ntze","orcid":"https://orcid.org/0000-0002-6204-571X"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"H\u00e4ntze, Hartmut","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065252882","display_name":"Lina Xu","orcid":"https://orcid.org/0000-0002-0455-3839"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Xu, Lina","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Mertens, Christian J.","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mertens, Christian J.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5097357149","display_name":"Felix J. Dorfner","orcid":"https://orcid.org/0009-0003-5914-3233"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dorfner, Felix J.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5093863147","display_name":"Leonhard Donle","orcid":"https://orcid.org/0000-0002-7931-4621"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Donle, Leonhard","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Busch, Felix","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Busch, Felix","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Kader, Avan","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kader, Avan","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Ziegelmayer, Sebastian","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ziegelmayer, Sebastian","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Bayerl, Nadine","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bayerl, Nadine","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Navab, Nassir","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Navab, Nassir","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Rueckert, Daniel","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rueckert, Daniel","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Schnabel, Julia","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Schnabel, Julia","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001452511","display_name":"Hugo J.W.L. Aerts","orcid":"https://orcid.org/0000-0002-2122-2003"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Aerts, Hugo JWL","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016512818","display_name":"Daniel Truhn","orcid":"https://orcid.org/0000-0002-9605-0728"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Truhn, Daniel","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Bamberg, Fabian","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bamberg, Fabian","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Wei\u00df, Jakob","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wei\u00df, Jakob","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Schlett, Christopher L.","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Schlett, Christopher L.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Ringhof, Steffen","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ringhof, Steffen","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Niendorf, Thoralf","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Niendorf, Thoralf","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Pischon, Tobias","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Pischon, Tobias","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Kauczor, Hans-Ulrich","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kauczor, Hans-Ulrich","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Nonnenmacher, Tobias","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nonnenmacher, Tobias","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Kr\u00f6ncke, Thomas","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kr\u00f6ncke, Thomas","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"V\u00f6lzke, Henry","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"V\u00f6lzke, Henry","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Schulz-Menger, Jeanette","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Schulz-Menger, Jeanette","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Maier-Hein, Klaus","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Maier-Hein, Klaus","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040734781","display_name":"Mathias Prokop","orcid":"https://orcid.org/0000-0001-8157-8055"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Prokop, Mathias","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042982766","display_name":"Bram van Ginneken","orcid":"https://orcid.org/0000-0003-2028-8972"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"van Ginneken, Bram","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078758408","display_name":"Alessa Hering","orcid":"https://orcid.org/0000-0002-7602-803X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hering, Alessa","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Makowski, Marcus R.","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Makowski, Marcus R.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005164520","display_name":"Lisa C. Adams","orcid":"https://orcid.org/0000-0001-5836-4542"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Adams, Lisa C.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5006318966","display_name":"Keno K. Bressem","orcid":"https://orcid.org/0000-0001-9249-8624"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bressem, Keno K.","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":32,"corresponding_author_ids":["https://openalex.org/A5097357148"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T14510","display_name":"Medical Imaging and Analysis","score":0.9143999814987183,"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"}},"topics":[{"id":"https://openalex.org/T14510","display_name":"Medical Imaging and Analysis","score":0.9143999814987183,"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"}},{"id":"https://openalex.org/T12422","display_name":"Radiomics and Machine Learning in Medical Imaging","score":0.9075999855995178,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/modality","display_name":"Modality (human\u2013computer interaction)","score":0.7336922883987427},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.5499352216720581},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.47180691361427307},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4237726032733917},{"id":"https://openalex.org/keywords/radiology","display_name":"Radiology","score":0.418887734413147},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3483980894088745}],"concepts":[{"id":"https://openalex.org/C2780226545","wikidata":"https://www.wikidata.org/wiki/Q6888030","display_name":"Modality (human\u2013computer interaction)","level":2,"score":0.7336922883987427},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.5499352216720581},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.47180691361427307},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4237726032733917},{"id":"https://openalex.org/C126838900","wikidata":"https://www.wikidata.org/wiki/Q77604","display_name":"Radiology","level":1,"score":0.418887734413147},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3483980894088745}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:arXiv.org:2405.06463","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2405.06463","pdf_url":"https://arxiv.org/pdf/2405.06463","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"doi:10.48550/arxiv.2405.06463","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2405.06463","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2405.06463","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2405.06463","pdf_url":"https://arxiv.org/pdf/2405.06463","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1650405572","display_name":null,"funder_award_id":"01ER1511D","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G352791218","display_name":null,"funder_award_id":"(BMBF)","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G4058565968","display_name":null,"funder_award_id":"01ER1","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G521713464","display_name":null,"funder_award_id":"01ER1801A/B/C/D","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G6955755495","display_name":null,"funder_award_id":"Germany","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G7227823674","display_name":"NAKO Gesundheitsstudie - 1. F\u00f6rderphase","funder_award_id":"01ER1301A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G7391652662","display_name":null,"funder_award_id":"01ER1301A/B/C","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G777729220","display_name":"NAKO Gesundheitsstudie - 2. F\u00f6rderphase","funder_award_id":"01ER1801A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320310707","display_name":"Wilhelm Sander-Stiftung","ror":"https://ror.org/02q83sc19"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320334763","display_name":"Leibniz-Gemeinschaft","ror":"https://ror.org/01n6r0e97"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4396912841.pdf"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W3031052312","https://openalex.org/W4389568370","https://openalex.org/W3032375762","https://openalex.org/W1995515455","https://openalex.org/W2080531066","https://openalex.org/W3108674512","https://openalex.org/W1506200166","https://openalex.org/W1489783725","https://openalex.org/W2148612803"],"abstract_inverted_index":{"Purpose:":[0],"To":[1],"develop":[2],"and":[3,16,38,80,115,127,140,145,165,240],"evaluate":[4],"a":[5,72,254],"deep":[6],"learning":[7,55,77],"model":[8,19,61,73,144,212,251],"for":[9,156,202,208,257],"multi-organ":[10,259],"segmentation":[11,60,135,260],"of":[12,220],"MRI":[13,28,36,99,236],"scans.":[14],"Materials":[15],"Methods:":[17],"The":[18,67,93,122,143,211],"was":[20,50,83,96],"trained":[21],"on":[22,75,87,98,224],"1,200":[23],"manually":[24],"annotated":[25],"3D":[26],"axial":[27],"scans":[29,41],"from":[30,42,56,102,110,116,198,269],"the":[31,43,103,111,117],"UK":[32],"Biobank,":[33],"221":[34],"in-house":[35],"scans,":[37],"1228":[39],"CT":[40,59,79,226,247],"TotalSegmentator":[44],"dataset.":[45],"A":[46],"human-in-the-loop":[47],"annotation":[48,68],"workflow":[49],"employed,":[51],"leveraging":[52],"cross-modality":[53],"transfer":[54,76],"an":[57],"existing":[58],"to":[62,90,133,204,215,246],"segment":[63],"40":[64,232],"anatomical":[65,233],"structures.":[66],"process":[69],"began":[70],"with":[71,167,243],"based":[74,86],"between":[78],"MR,":[81],"which":[82],"iteratively":[84],"refined":[85],"manual":[88],"corrections":[89],"predicted":[91],"segmentations.":[92],"model's":[94],"performance":[95],"evaluated":[97],"examinations":[100],"obtained":[101],"German":[104],"National":[105],"Cohort":[106],"(NAKO)":[107],"study":[108],"(n=900)":[109],"AMOS22":[112],"dataset":[113],"(n=60)":[114],"TotalSegmentator-MRI":[118],"test":[119],"data":[120],"(n=29).":[121],"Dice":[123],"Similarity":[124],"Coefficient":[125],"(DSC)":[126],"Hausdorff":[128],"Distance":[129],"(HD)":[130],"were":[131],"used":[132],"assess":[134],"quality,":[136],"stratified":[137],"by":[138],"organ":[139],"scan":[141],"type.":[142],"its":[146],"weights":[147],"will":[148,252],"be":[149,267],"open-sourced.":[150],"Results:":[151],"MRSegmentator":[152,229],"demonstrated":[153],"high":[154],"accuracy":[155,180],"well-defined":[157],"organs":[158,166],"(lungs:":[159],"DSC":[160,163,171,174,183,187,196,219],"0.96,":[161,172],"heart:":[162],"0.94)":[164],"anatomic":[168],"variability":[169],"(liver:":[170],"kidneys:":[173],"0.95).":[175],"Smaller":[176],"structures":[177,234],"showed":[178],"lower":[179],"(portal/splenic":[181],"veins:":[182],"0.64,":[184],"adrenal":[185],"glands:":[186],"0.69).":[188],"On":[189],"external":[190],"validation":[191],"using":[192],"NAKO":[193],"data,":[194],"mean":[195,218],"ranged":[197],"0.85":[199],"$\\pm$":[200,206,222],"0.08":[201],"T2-HASTE":[203],"0.91":[205],"0.05":[207],"in-phase":[209],"sequences.":[210],"generalized":[213],"well":[214],"CT,":[216],"achieving":[217],"0.84":[221],"0.11":[223],"AMOS":[225],"data.":[227],"Conclusion:":[228],"accurately":[230],"segments":[231],"in":[235,261],"across":[237],"diverse":[238],"datasets":[239],"imaging":[241,263],"protocols,":[242],"additional":[244],"generalizability":[245],"images.":[248],"This":[249],"open-source":[250],"provide":[253],"valuable":[255],"tool":[256],"automated":[258],"medical":[262],"research.":[264],"It":[265],"can":[266],"downloaded":[268],"https://github.com/hhaentze/MRSegmentator.":[270]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2024-05-15T00:00:00"}
