{"id":"https://openalex.org/W4381948413","doi":"https://doi.org/10.1007/s12021-023-09632-8","title":"Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space","display_name":"Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space","publication_year":2023,"publication_date":"2023-06-26","ids":{"openalex":"https://openalex.org/W4381948413","doi":"https://doi.org/10.1007/s12021-023-09632-8","pmid":"https://pubmed.ncbi.nlm.nih.gov/37357231"},"language":"en","primary_location":{"id":"doi:10.1007/s12021-023-09632-8","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-023-09632-8","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-023-09632-8.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"is_oa":false,"is_in_doaj":false,"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":"Neuroinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007/s12021-023-09632-8.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079461830","display_name":"Maryam Sadeghi","orcid":"https://orcid.org/0000-0002-8579-7527"},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":true,"raw_author_name":"Maryam Sadeghi","raw_affiliation_strings":["Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria. maryam.sadeghi@i-med.ac.at","Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria. maryam.sadeghi@i-med.ac.at","institution_ids":["https://openalex.org/I143397708"]},{"raw_affiliation_string":"Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010360089","display_name":"Arnau Ramos-Prats","orcid":"https://orcid.org/0000-0002-4479-803X"},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Arnau Ramos-Prats","raw_affiliation_strings":["Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101950279","display_name":"Pedro C. Neto","orcid":"https://orcid.org/0000-0003-1333-4889"},"institutions":[{"id":"https://openalex.org/I182534213","display_name":"Universidade do Porto","ror":"https://ror.org/043pwc612","country_code":"PT","type":"education","lineage":["https://openalex.org/I182534213"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Pedro Neto","raw_affiliation_strings":["Faculty of Engineering, University of Porto, Porto, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Engineering, University of Porto, Porto, Portugal","institution_ids":["https://openalex.org/I182534213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014999248","display_name":"Federico Castaldi","orcid":"https://orcid.org/0000-0002-3388-2287"},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Federico Castaldi","raw_affiliation_strings":["Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087840110","display_name":"Devin Crowley","orcid":null},"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":"Devin Crowley","raw_affiliation_strings":["Biomedical Engineering, Johns Hopkins University, Baltimore, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Engineering, Johns Hopkins University, Baltimore, United States","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021885566","display_name":"Pawe\u0142 Matulewicz","orcid":"https://orcid.org/0000-0002-9795-733X"},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Pawel Matulewicz","raw_affiliation_strings":["Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017144228","display_name":"Enrica Paradiso","orcid":"https://orcid.org/0000-0002-0946-4608"},"institutions":[{"id":"https://openalex.org/I1295801184","display_name":"Netherlands Institute for Neuroscience","ror":"https://ror.org/05csn2x06","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1295801184","https://openalex.org/I1322597698"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Enrica Paradiso","raw_affiliation_strings":["KNAW, Netherlands Institute for Neuroscience, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"KNAW, Netherlands Institute for Neuroscience, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I1295801184"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060877730","display_name":"Wolfgang Freysinger","orcid":"https://orcid.org/0000-0002-2833-3224"},"institutions":[{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]},{"id":"https://openalex.org/I4210162546","display_name":"University Hospital Innsbruck","ror":"https://ror.org/05wjv2104","country_code":"AT","type":"healthcare","lineage":["https://openalex.org/I4210162546"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Wolfgang Freysinger","raw_affiliation_strings":["Univ. ENT Hospital, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Univ. ENT Hospital, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I4210162546","https://openalex.org/I190249584"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029656681","display_name":"Francesco Ferraguti","orcid":"https://orcid.org/0000-0002-3843-5857"},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Francesco Ferraguti","raw_affiliation_strings":["Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]},{"author_position":"last","author":{"id":null,"display_name":"Georg Goebel","orcid":null},"institutions":[{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I190249584","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659","country_code":"AT","type":"education","lineage":["https://openalex.org/I190249584"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Georg Goebel","raw_affiliation_strings":["Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Statistics and Informatics, Medical University of Innsbruck, Innsbruck, Austria","institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5079461830"],"corresponding_institution_ids":["https://openalex.org/I143397708","https://openalex.org/I190249584"],"apc_list":{"value":3190,"currency":"EUR","value_usd":4190},"apc_paid":{"value":3190,"currency":"EUR","value_usd":4190},"fwci":1.6093,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.85696222,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"21","issue":"3","first_page":"615","last_page":"630"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10052","display_name":"Medical Image Segmentation Techniques","score":0.9993000030517578,"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/T10052","display_name":"Medical Image Segmentation Techniques","score":0.9993000030517578,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9955999851226807,"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/T10862","display_name":"AI in cancer detection","score":0.9904999732971191,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/atlas","display_name":"Atlas (anatomy)","score":0.7592480778694153},{"id":"https://openalex.org/keywords/image-registration","display_name":"Image registration","score":0.5725640654563904},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.556569516658783},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.5161160230636597},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5010221004486084},{"id":"https://openalex.org/keywords/brain-atlas","display_name":"Brain atlas","score":0.4623135030269623},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.4107779860496521},{"id":"https://openalex.org/keywords/cartography","display_name":"Cartography","score":0.3437209129333496},{"id":"https://openalex.org/keywords/anatomy","display_name":"Anatomy","score":0.32052549719810486},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2478901743888855},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.2148537039756775},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.1352892816066742}],"concepts":[{"id":"https://openalex.org/C2776673561","wikidata":"https://www.wikidata.org/wiki/Q655357","display_name":"Atlas (anatomy)","level":2,"score":0.7592480778694153},{"id":"https://openalex.org/C166704113","wikidata":"https://www.wikidata.org/wiki/Q861092","display_name":"Image registration","level":3,"score":0.5725640654563904},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.556569516658783},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.5161160230636597},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5010221004486084},{"id":"https://openalex.org/C2780972224","wikidata":"https://www.wikidata.org/wiki/Q17047956","display_name":"Brain atlas","level":2,"score":0.4623135030269623},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.4107779860496521},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.3437209129333496},{"id":"https://openalex.org/C105702510","wikidata":"https://www.wikidata.org/wiki/Q514","display_name":"Anatomy","level":1,"score":0.32052549719810486},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2478901743888855},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.2148537039756775},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.1352892816066742}],"mesh":[{"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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":false},{"descriptor_ui":"D006257","descriptor_name":"Head","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006257","descriptor_name":"Head","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006257","descriptor_name":"Head","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006257","descriptor_name":"Head","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"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":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1007/s12021-023-09632-8","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-023-09632-8","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-023-09632-8.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"is_oa":false,"is_in_doaj":false,"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":"Neuroinformatics","raw_type":"journal-article"},{"id":"pmid:37357231","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37357231","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":"Neuroinformatics","raw_type":null},{"id":"pmh:oai:iris.unimore.it:11380/1344989","is_oa":true,"landing_page_url":"https://hdl.handle.net/11380/1344989","pdf_url":"https://iris.unimore.it/bitstream/11380/1344989/2/s12021-023-09632-8.pdf","source":{"id":"https://openalex.org/S4377196326","display_name":"Iris Unimore (University of Modena and Reggio Emilia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122346577","host_organization_name":"University of Modena and Reggio Emilia","host_organization_lineage":["https://openalex.org/I122346577"],"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":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10406728","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10406728","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10406728/pdf/12021_2023_Article_9632.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Neuroinformatics","raw_type":"Text"},{"id":"pmh:oai:pure.knaw.nl:publications/77b52669-4be6-4e25-8995-3be3995726bf","is_oa":true,"landing_page_url":"https://pure.knaw.nl/portal/en/publications/77b52669-4be6-4e25-8995-3be3995726bf","pdf_url":"https://pure.knaw.nl/ws/files/992924990/Sadeghi2023.pdf","source":{"id":"https://openalex.org/S4306401286","display_name":"KNAW research portal (Royal Academy of Art and Sciences (KNAW))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Sadeghi, M, Ramos-Prats, A, Neto, P, Castaldi, F, Crowley, D, Matulewicz, P, Paradiso, E, Freysinger, W, Ferraguti, F & Goebel, G 2023, 'Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space', Neuroinformatics, vol. 21, pp. 615-630. https://doi.org/10.1007/s12021-023-09632-8","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pure.knaw.nl:openaire_cris_publications/77b52669-4be6-4e25-8995-3be3995726bf","is_oa":true,"landing_page_url":"https://hdl.handle.net/20.500.11755/77b52669-4be6-4e25-8995-3be3995726bf","pdf_url":null,"source":{"id":"https://openalex.org/S4306401286","display_name":"KNAW research portal (Royal Academy of Art and Sciences (KNAW))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Sadeghi, M, Ramos-Prats, A, Neto, P, Castaldi, F, Crowley, D, Matulewicz, P, Paradiso, E, Freysinger, W, Ferraguti, F & Goebel, G 2023, 'Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space', Neuroinformatics, vol. 21, pp. 615-630. https://doi.org/10.1007/s12021-023-09632-8","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1007/s12021-023-09632-8","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s12021-023-09632-8","pdf_url":"https://link.springer.com/content/pdf/10.1007/s12021-023-09632-8.pdf","source":{"id":"https://openalex.org/S3444786","display_name":"Neuroinformatics","issn_l":"1539-2791","issn":["1539-2791","1559-0089"],"is_oa":false,"is_in_doaj":false,"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":"Neuroinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1578392226","display_name":null,"funder_award_id":"GZ 10.470/0010-V/3c/2018","funder_id":"https://openalex.org/F4320328086","funder_display_name":"Bundesministerium f\u00fcr Bildung, Wissenschaft und Forschung"},{"id":"https://openalex.org/G177261718","display_name":null,"funder_award_id":"10.470/0010-V/3c/2018","funder_id":"https://openalex.org/F4320328086","funder_display_name":"Bundesministerium f\u00fcr Bildung, Wissenschaft und Forschung"},{"id":"https://openalex.org/G2323377878","display_name":null,"funder_award_id":"F44-17-B23","funder_id":"https://openalex.org/F4320321181","funder_display_name":"Austrian Science Fund"},{"id":"https://openalex.org/G7422990477","display_name":null,"funder_award_id":"F44-17","funder_id":"https://openalex.org/F4320321181","funder_display_name":"Austrian Science Fund"}],"funders":[{"id":"https://openalex.org/F4320321181","display_name":"Austrian Science Fund","ror":"https://ror.org/013tf3c58"},{"id":"https://openalex.org/F4320326164","display_name":"Medizinische Universit\u00e4t Innsbruck","ror":"https://ror.org/03pt86f80"},{"id":"https://openalex.org/F4320327491","display_name":"Universit\u00e4t Innsbruck","ror":"https://ror.org/054pv6659"},{"id":"https://openalex.org/F4320328086","display_name":"Bundesministerium f\u00fcr Bildung, Wissenschaft und Forschung","ror":"https://ror.org/03gng8t46"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4381948413.pdf"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1901129140","https://openalex.org/W1975389666","https://openalex.org/W1978658333","https://openalex.org/W1987869189","https://openalex.org/W2034432063","https://openalex.org/W2052235656","https://openalex.org/W2054870083","https://openalex.org/W2087159877","https://openalex.org/W2093534314","https://openalex.org/W2123491442","https://openalex.org/W2133584444","https://openalex.org/W2170167891","https://openalex.org/W2171811623","https://openalex.org/W2194775991","https://openalex.org/W2261869528","https://openalex.org/W2318719918","https://openalex.org/W2408110716","https://openalex.org/W2462878378","https://openalex.org/W2732601952","https://openalex.org/W2784363986","https://openalex.org/W2900358948","https://openalex.org/W2905058438","https://openalex.org/W2947461179","https://openalex.org/W2951285637","https://openalex.org/W2963163009","https://openalex.org/W2966593583","https://openalex.org/W2966999298","https://openalex.org/W2977175469","https://openalex.org/W2979695895","https://openalex.org/W3004721321","https://openalex.org/W3021105102","https://openalex.org/W3030923655","https://openalex.org/W3123085398","https://openalex.org/W3183158085","https://openalex.org/W3213664586","https://openalex.org/W4200271479","https://openalex.org/W4205632342","https://openalex.org/W4223483385","https://openalex.org/W4224319396","https://openalex.org/W4225285608","https://openalex.org/W4225982750","https://openalex.org/W4229030356","https://openalex.org/W4229331936","https://openalex.org/W4229364369","https://openalex.org/W4281801992","https://openalex.org/W4386923319"],"related_works":["https://openalex.org/W3214912135","https://openalex.org/W1990901612","https://openalex.org/W2951635595","https://openalex.org/W4387252449","https://openalex.org/W4319337879","https://openalex.org/W2012519212","https://openalex.org/W4249039539","https://openalex.org/W562633612","https://openalex.org/W1523541591","https://openalex.org/W4389549668"],"abstract_inverted_index":{"To":[0],"accurately":[1],"explore":[2],"the":[3,10,17,34,56,75,80,103,140,157,167],"anatomical":[4],"organization":[5],"of":[6,25,65,77,79,206],"neural":[7],"circuits":[8],"in":[9,37,139,178],"brain,":[11],"it":[12,188,226],"is":[13,45,128,154,227],"crucial":[14],"to":[15,48,96,170,182,212,229],"map":[16,97],"experimental":[18,66,207],"brain":[19,31,43,68,100,105,168,210,216],"data":[20],"onto":[21],"a":[22,86,113,118,122,129,135,147,191,221],"standardized":[23],"system":[24],"coordinates.":[26],"Studying":[27],"2D":[28,42,98,137,164,208],"histological":[29],"mouse":[30,67,99,209,215],"slices":[32,44,69,101],"remains":[33],"standard":[35,57],"procedure":[36],"many":[38],"laboratories.":[39],"Mapping":[40],"these":[41],"challenging;":[46],"due":[47],"deformations,":[49],"artifacts,":[50],"and":[51,59,121,145,180,199,225],"tilted":[52],"angles":[53],"introduced":[54],"during":[55],"preparation":[58],"slicing":[60],"process.":[61],"In":[62],"addition,":[63],"analysis":[64],"can":[70],"be":[71,230],"highly":[72,200],"dependent":[73],"on":[74,102],"level":[76],"expertise":[78],"human":[81,109,183,192],"operator.":[82],"Here":[83],"we":[84,185],"propose":[85],"computational":[87],"tool":[88,219],"for":[89,203],"Accurate":[90],"Mouse":[91],"Brain":[92,143],"Image":[93],"Analysis":[94],"(AMBIA),":[95],"3D":[104,141,213],"model":[106],"with":[107,234],"minimal":[108,235],"intervention.":[110],"AMBIA":[111,195],"has":[112],"modular":[114],"design":[115],"that":[116,133,161,187],"comprises":[117],"localization":[119,126,179],"module":[120,127,153],"registration":[123,152,165,181,205],"module.":[124],"The":[125,151],"deep":[130],"learning-based":[131],"pipeline":[132],"localizes":[134],"single":[136],"slice":[138,169],"Allen":[142],"Atlas":[144],"generates":[146],"corresponding":[148,172],"atlas":[149],"plane.":[150],"built":[155],"upon":[156],"Ardent":[158],"python":[159],"package":[160],"performs":[162,189],"deformable":[163],"between":[166],"its":[171],"atlas.":[173,217],"By":[174],"comparing":[175],"AMBIA's":[176],"performance":[177],"ratings,":[184],"demonstrate":[186],"at":[190],"expert":[193],"level.":[194],"provides":[196,220],"an":[197],"intuitive":[198],"efficient":[201],"way":[202],"accurate":[204],"images":[211],"digital":[214],"Our":[218],"graphical":[222],"user":[223],"interface":[224],"designed":[228],"used":[231],"by":[232],"researchers":[233],"programming":[236],"knowledge.":[237]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1}],"updated_date":"2026-05-11T08:15:01.531666","created_date":"2025-10-10T00:00:00"}
