{"id":"https://openalex.org/W6930811388","doi":"https://doi.org/10.5281/zenodo.15487520","title":"Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering - Supporting Data","display_name":"Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering - Supporting Data","publication_year":2025,"publication_date":"2025-06-27","ids":{"openalex":"https://openalex.org/W6930811388","doi":"https://doi.org/10.5281/zenodo.15487520"},"language":"en","primary_location":{"id":"doi:10.5281/zenodo.15487520","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15487520","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.5281/zenodo.15487520","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Sun, Jieran","orcid":"https://orcid.org/0000-0002-7996-3840"},"institutions":[{"id":"https://openalex.org/I2802229882","display_name":"Centre Hospitalier Universitaire Vaudois","ror":"https://ror.org/05a353079","country_code":"CH","type":"healthcare","lineage":["https://openalex.org/I2802229882"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Sun, Jieran","raw_affiliation_strings":["University Hospital of Lausanne","ETH Zurich"],"raw_orcid":"https://orcid.org/0000-0002-7996-3840","affiliations":[{"raw_affiliation_string":"University Hospital of Lausanne","institution_ids":["https://openalex.org/I2802229882"]},{"raw_affiliation_string":"ETH Zurich","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Biharie, Kirti","orcid":"https://orcid.org/0000-0002-8274-8439"},"institutions":[{"id":"https://openalex.org/I2800006345","display_name":"Leiden University Medical Center","ror":"https://ror.org/05xvt9f17","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2800006345"]},{"id":"https://openalex.org/I98358874","display_name":"Delft University of Technology","ror":"https://ror.org/02e2c7k09","country_code":"NL","type":"education","lineage":["https://openalex.org/I98358874"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Biharie, Kirti","raw_affiliation_strings":["Delft University of Technology","Leiden University Medical Center"],"raw_orcid":"https://orcid.org/0000-0002-8274-8439","affiliations":[{"raw_affiliation_string":"Delft University of Technology","institution_ids":["https://openalex.org/I98358874"]},{"raw_affiliation_string":"Leiden University Medical Center","institution_ids":["https://openalex.org/I2800006345"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Cai, Peiying","orcid":"https://orcid.org/0009-0001-9229-2244"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Cai, Peiying","raw_affiliation_strings":["University of Zurich"],"raw_orcid":"https://orcid.org/0009-0001-9229-2244","affiliations":[{"raw_affiliation_string":"University of Zurich","institution_ids":["https://openalex.org/I202697423"]}]},{"author_position":"middle","author":{"id":null,"display_name":"M\u00fcller-B\u00f6tticher, Niklas","orcid":"https://orcid.org/0000-0001-5103-7282"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"M\u00fcller-B\u00f6tticher, Niklas","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-5103-7282","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Kiessling, Paul","orcid":"https://orcid.org/0000-0002-9794-9532"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Kiessling, Paul","raw_affiliation_strings":["RWTH Aachen University"],"raw_orcid":"https://orcid.org/0000-0002-9794-9532","affiliations":[{"raw_affiliation_string":"RWTH Aachen University","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Turner, Meghan","orcid":"https://orcid.org/0000-0003-2451-5036"},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Turner, Meghan","raw_affiliation_strings":["Allen Institute for Brain Science"],"raw_orcid":"https://orcid.org/0000-0003-2451-5036","affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science","institution_ids":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Dam, S\u00f8ren Helweg","orcid":"https://orcid.org/0000-0003-0755-0016"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dam, S\u00f8ren Helweg","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0003-0755-0016","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Heyl, Florian","orcid":"https://orcid.org/0000-0002-3651-5685"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Heyl, Florian","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0002-3651-5685","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Kathirchelvan, Sarusan","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kathirchelvan, Sarusan","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Emons, Martin","orcid":"https://orcid.org/0009-0000-5219-5311"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Emons, Martin","raw_affiliation_strings":["University of Zurich"],"raw_orcid":"https://orcid.org/0009-0000-5219-5311","affiliations":[{"raw_affiliation_string":"University of Zurich","institution_ids":["https://openalex.org/I202697423"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Gunz, Samuel","orcid":"https://orcid.org/0000-0002-8909-0932"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Gunz, Samuel","raw_affiliation_strings":["University of Zurich"],"raw_orcid":"https://orcid.org/0000-0002-8909-0932","affiliations":[{"raw_affiliation_string":"University of Zurich","institution_ids":["https://openalex.org/I202697423"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Twardziok, Sven","orcid":"https://orcid.org/0000-0002-0326-5704"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Twardziok, Sven","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0002-0326-5704","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"El-Heliebi, Amin","orcid":"https://orcid.org/0000-0002-7679-6856"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"El-Heliebi, Amin","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0002-7679-6856","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Zacharias, Martin","orcid":"https://orcid.org/0000-0003-3021-1047"},"institutions":[{"id":"https://openalex.org/I202276237","display_name":"Medical University of Graz","ror":"https://ror.org/02n0bts35","country_code":"AT","type":"education","lineage":["https://openalex.org/I202276237"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Zacharias, Martin","raw_affiliation_strings":["Medical University of Graz"],"raw_orcid":"https://orcid.org/0000-0003-3021-1047","affiliations":[{"raw_affiliation_string":"Medical University of Graz","institution_ids":["https://openalex.org/I202276237"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Eils, Roland","orcid":"https://orcid.org/0000-0002-0034-4036"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I4210139777","display_name":"Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin","ror":"https://ror.org/0493xsw21","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210139777","https://openalex.org/I7877124"]},{"id":"https://openalex.org/I7877124","display_name":"Charit\u00e9 - Universit\u00e4tsmedizin Berlin","ror":"https://ror.org/001w7jn25","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I7877124"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Eils, Roland","raw_affiliation_strings":["University of Heidelberg Bioquant","Charit\u00e9 - Universit\u00e4tsmedizin Berlin","Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin"],"raw_orcid":"https://orcid.org/0000-0002-0034-4036","affiliations":[{"raw_affiliation_string":"University of Heidelberg Bioquant","institution_ids":["https://openalex.org/I223822909"]},{"raw_affiliation_string":"Charit\u00e9 - Universit\u00e4tsmedizin Berlin","institution_ids":["https://openalex.org/I7877124"]},{"raw_affiliation_string":"Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin","institution_ids":["https://openalex.org/I4210139777"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Reinders, Marcel","orcid":"https://orcid.org/0000-0002-1148-1562"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Reinders, Marcel","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0002-1148-1562","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Gottardo, Raphael","orcid":"https://orcid.org/0000-0002-3867-0232"},"institutions":[{"id":"https://openalex.org/I4210089486","display_name":"Fred Hutch Cancer Center","ror":"https://ror.org/007ps6h72","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210089486"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH","US"],"is_corresponding":false,"raw_author_name":"Gottardo, Raphael","raw_affiliation_strings":["University of Lausanne","Fred Hutch Cancer Center"],"raw_orcid":"https://orcid.org/0000-0002-3867-0232","affiliations":[{"raw_affiliation_string":"University of Lausanne","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Fred Hutch Cancer Center","institution_ids":["https://openalex.org/I4210089486"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Kuppe, Christoph","orcid":"https://orcid.org/0000-0003-4597-9833"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Kuppe, Christoph","raw_affiliation_strings":["RWTH Aachen University"],"raw_orcid":"https://orcid.org/0000-0003-4597-9833","affiliations":[{"raw_affiliation_string":"RWTH Aachen University","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Long, Brian","orcid":"https://orcid.org/0000-0002-7793-5969"},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Long, Brian","raw_affiliation_strings":["Allen Institute for Brain Science"],"raw_orcid":"https://orcid.org/0000-0002-7793-5969","affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science","institution_ids":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Mahfouz, Ahmed","orcid":"https://orcid.org/0000-0001-8601-2149"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mahfouz, Ahmed","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-8601-2149","affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Robinson, Mark","orcid":"https://orcid.org/0000-0002-3048-5518"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Robinson, Mark","raw_affiliation_strings":["University of Zurich","SIB Swiss Institute of Bioinformatics"],"raw_orcid":"https://orcid.org/0000-0002-3048-5518","affiliations":[{"raw_affiliation_string":"University of Zurich","institution_ids":["https://openalex.org/I202697423"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":null,"display_name":"Ishaque, Naveed","orcid":"https://orcid.org/0000-0002-8426-901X"},"institutions":[{"id":"https://openalex.org/I4210139777","display_name":"Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin","ror":"https://ror.org/0493xsw21","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210139777","https://openalex.org/I7877124"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Ishaque, Naveed","raw_affiliation_strings":["Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin"],"raw_orcid":"https://orcid.org/0000-0002-8426-901X","affiliations":[{"raw_affiliation_string":"Berlin Institute of Health at Charit\u00e9 - Universit\u00e4tsmedizin Berlin","institution_ids":["https://openalex.org/I4210139777"]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":15,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"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":true,"primary_topic":{"id":"https://openalex.org/T10647","display_name":"Coastal and Marine Dynamics","score":0.10849999636411667,"subfield":{"id":"https://openalex.org/subfields/1904","display_name":"Earth-Surface Processes"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10647","display_name":"Coastal and Marine Dynamics","score":0.10849999636411667,"subfield":{"id":"https://openalex.org/subfields/1904","display_name":"Earth-Surface Processes"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11061","display_name":"Ocean Waves and Remote Sensing","score":0.07079999893903732,"subfield":{"id":"https://openalex.org/subfields/1910","display_name":"Oceanography"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12577","display_name":"Geography and Environmental Studies","score":0.022700000554323196,"subfield":{"id":"https://openalex.org/subfields/2312","display_name":"Water Science and Technology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.6966000199317932},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.645799994468689},{"id":"https://openalex.org/keywords/ground-truth","display_name":"Ground truth","score":0.5666999816894531},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.5512999892234802},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5383999943733215},{"id":"https://openalex.org/keywords/human-liver","display_name":"Human liver","score":0.484499990940094},{"id":"https://openalex.org/keywords/authentication","display_name":"Authentication (law)","score":0.3882000148296356},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.33880001306533813}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6966000199317932},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6841999888420105},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.645799994468689},{"id":"https://openalex.org/C146849305","wikidata":"https://www.wikidata.org/wiki/Q370766","display_name":"Ground truth","level":2,"score":0.5666999816894531},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5512999892234802},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5437999963760376},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5383999943733215},{"id":"https://openalex.org/C2776418720","wikidata":"https://www.wikidata.org/wiki/Q9368","display_name":"Human liver","level":3,"score":0.484499990940094},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.47540000081062317},{"id":"https://openalex.org/C148417208","wikidata":"https://www.wikidata.org/wiki/Q4825882","display_name":"Authentication (law)","level":2,"score":0.3882000148296356},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.33880001306533813},{"id":"https://openalex.org/C125411270","wikidata":"https://www.wikidata.org/wiki/Q18653","display_name":"Encoding (memory)","level":2,"score":0.337799996137619},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.32710000872612},{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.3244999945163727},{"id":"https://openalex.org/C46576248","wikidata":"https://www.wikidata.org/wiki/Q1114630","display_name":"DBSCAN","level":5,"score":0.27079999446868896},{"id":"https://openalex.org/C9357733","wikidata":"https://www.wikidata.org/wiki/Q6878417","display_name":"Missing data","level":2,"score":0.26980000734329224},{"id":"https://openalex.org/C2776256026","wikidata":"https://www.wikidata.org/wiki/Q47912","display_name":"Lung cancer","level":2,"score":0.26669999957084656},{"id":"https://openalex.org/C2779246727","wikidata":"https://www.wikidata.org/wiki/Q184215","display_name":"Thalamus","level":2,"score":0.2630000114440918},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.2630000114440918},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.26019999384880066},{"id":"https://openalex.org/C99138194","wikidata":"https://www.wikidata.org/wiki/Q183427","display_name":"Hash function","level":2,"score":0.25920000672340393},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.25209999084472656}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.5281/zenodo.15487520","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15487520","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":"Dataset"}],"best_oa_location":{"id":"doi:10.5281/zenodo.15487520","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15487520","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7471636463","display_name":null,"funder_award_id":"34522","funder_id":"https://openalex.org/F4320321800","funder_display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek"}],"funders":[{"id":"https://openalex.org/F4320321800","display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek","ror":"https://ror.org/04jsz6e67"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"This":[0],"Zenodo":[1,422],"record":[2],"consists":[3,61,154,233,353,426,480,571,645,715,782,860,925,982,1042,1115],"of:":[4],"15":[5,364],"benchmark":[6],"datasets":[7,38],"used":[8],"to":[9,30,278,383,457,616],"evaluate":[10],"the":[11,25,32,55,76,91,95,114,128,148,194,208,226,275,279,287,295,320,388,455,458,474,502,525,564,589,606,639,657,690,709,750,753,776,829,853,918,932,1022,1108,1125,1199,1247,1267],"performance":[12],"of":[13,62,116,155,196,234,264,354,397,403,427,481,572,576,646,649,692,716,755,783,828,861,926,983,988,1043,1053,1116,1120,1128,1160,1195,1266],"spatial":[14,1171,1193],"domain":[15],"detection":[16],"methods":[17],"(https://github.com/SpatialHackathon/SACCELERATOR)":[18],"Resulting":[19],"domains":[20],"and":[21,75,283,302,363,548,665,726,757,801,875,896,1002,1064,1139,1162,1192],"calculated":[22],"metrics":[23],"wrt":[24],"annotation":[26,520,601,950,1016],"Additional":[27],"data":[28,277,456,869,995,1057],"necessary":[29],"reproduce":[31],"results":[33],"with":[34,83,163,286,373,488,512,792],"https://github.com/SpatialHackathon/SpaceHack2023_study":[35],"The":[36,47,59,103,138,152,183,216,231,267,339,351,378,412,424,446,466,478,517,556,569,598,628,643,681,700,713,736,767,780,811,841,858,868,886,907,923,947,964,980,994,1013,1029,1040,1056,1075,1097,1113,1216],"following":[37],"are":[39],"included:":[40],"CosMx":[41,48,92,131,139,174],"human":[42,49,132,140,334,341,461,504,834,843,960,966,1092,1100,1249],"liver":[43,44,50,74,697,703],"dataset":[45,51,60,136,144,153,221,232,337,344,352,410,417,425,464,470,479,554,560,570,626,634,644,698,704,714,765,771,781,838,847,859,905,913,924,981,1033,1041,1095,1103,1114],"(cosmx_liver)":[46],"was":[52,88,145,170,223,252,346,369,419,435,471,495,521,561,582,602,636,661,706,721,773,796,850,870,915,938,951,975,996,1017,1035,1058,1105,1132],"obtained":[53,146,224,347,420,472,562,637,707,774,851,916,976,1036,1106,1123],"from":[54,68,78,147,159,225,348,358,421,431,473,485,563,611,638,708,775,787,852,865,917,931,971,977,1037,1047,1107,1124],"NanoString":[56,149],"website":[57,150,476,567,641,711,778,921,1111],"(https://nanostring.com/products/cosmx-spatial-molecular-imager/ffpe-dataset/human-liver-rna-ffpe-dataset).":[58],"2":[63,69,359],"Formalin-Fixed":[64],"Paraffin-Embedded":[65],"(FFPE)":[66],"samples":[67,158,357,430,648,786,864,1046],"patients,":[70],"one":[71,247],"being":[72],"normal":[73,539],"other":[77],"a":[79,173,178,255,260,374,441,486,498,577,585,650,732,807,927,943,984,999,1061,1129,1135],"hepatocellular":[80],"carcinoma":[81,491,535,991],"patient":[82,487],"grade":[84,167],"G3":[85],"cancer.":[86,493],"Data":[87,169,251,368,434,494,581,660,720,795,937,1131],"generated":[89,171,253,370,436,496,583,662,722,797,871,939,997,1059,1133],"on":[90,113,172,193,254,329,497,584,670,689,723,731,749,798,806,826,872,880,894,998,1007,1021,1060,1069,1134,1144],"platform":[93],"using":[94,110,177,190,259,371,394,437,440,501,524,588,605,663,667,728,803,818,877,940,942,954,1004,1066,1082,1141],"Human":[96],"Universal":[97],"Cell":[98,1227],"Characterization":[99],"Panel":[100],"1000":[101],"plex.":[102],"ground":[104,184,268,379,447,518,599,682,737,812,887,948,1014,1076],"truth":[105,185,269,380,448,519,600,683,738,813,888,949,1015,1077],"annotations":[106,186,270,381,449,684,739,814,889,1078],"were":[107,187,271,311,322,391,450,685,740,746,815,890,1079],"computationally":[108,188,392,741,816,952,1080],"identified":[109,189,272,323,393,452,523,604,687,742,817,892,953,1019,1081],"Mclust":[111,191],"clustering":[112,192,396,831,1084],"frequency":[115,195],"each":[117,197,404],"cell":[118,198,1196],"type":[119,199],"among":[120,200],"its":[121,201],"200":[122,202,676],"nearest":[123,203],"neighbors.":[124,204],"See":[125,205],"NanoString_Data_License_Agreement.pdf":[126,206],"for":[127,207,530],"license":[129,209],"terms.":[130,210],"non-small-cell":[133,141,164],"lung":[134,142,165],"cancer":[135,143,166,463,469,962,968,1094,1102,1122],"(cosmx_lung)":[137],"(https://staging.nanostring.com/products/cosmx-spatial-molecular-imager/ffpe-dataset/nsclc-ffpe-dataset).":[151],"8":[156],"FFPE":[157,483,1118],"5":[160],"patients":[161],"presenting":[162],"G1-G3.":[168],"prototype":[175],"instrument":[176,258],"960":[179],"gene":[180,262,326,444,506,593,898],"panel":[181,263,508,595],"[1].":[182],"MERSCOPE":[211,257],"mouse":[212,218,249,408,415,552,558,591,607,622,630,651,696,702,763,769,788,901,909,933,1201,1268],"brain":[213,219,409,416,553,559,592,623,631,835,844,902,910,934],"thalamus":[214,220,296,321],"(abc_atlas_wmb_thalamus)":[215],"MERFISH":[217,276,333,340,372],"[2]":[222],"Brain":[227,613,1219],"Knowledge":[228],"Platform":[229],"(https://alleninstitute.github.io/abc_atlas_access/descriptions/MERFISH-C57BL6J-638850.html).":[230],"59":[235],"fresh":[236],"frozen":[237],"(FF)":[238],"serial":[239],"full":[240,578],"coronal":[241,579,608],"sections":[242],"at":[243,361,1050,1164,1272],"200-\u00b5m":[244],"intervals":[245],"spanning":[246,790],"entire":[248],"brain.":[250,1202],"Vizgen":[256],"custom":[261,375,442,515,944],"500":[265],"genes.":[266,516,694,761],"by":[273,324,453,1170],"aligning":[274,454],"CCFv3":[280,289,298,307],"coordinate":[281],"space":[282],"labeling":[284],"cells":[285],"corresponding":[288],"anatomical":[290,618],"parcellation":[291],"term":[292],"[3].":[293],"Only":[294],"(TH;":[297],"structure":[299,308],"ID":[300,309],"549)":[301],"hypothalamic":[303],"zona":[304],"incerta":[305],"(ZI;":[306],"797)":[310],"analyzed":[312],"in":[313,319,387,1087,1167,1198],"this":[314],"study.":[315],"Spatially":[316,819,1242],"variable":[317],"genes":[318],"differential":[325],"expression":[327,507,594,691],"analysis":[328],"neighboring":[330],"consensus":[331],"clusters.":[332],"developmental":[335,342],"heart":[336,343,1027,1032],"(merfish_devheart)":[338],"[4]":[345],"Dryad":[349],"(https://datadryad.org/stash/dataset/doi:10.5061/dryad.w0vt4b8vp).":[350],"4":[355,1231],"FF":[356,429,574,718,785,863,929,986,1045],"donors":[360],"13":[362],"post-conception":[365],"weeks":[366],"(PCW).":[367],"238-gene":[376],"panel.":[377,445,946],"(referred":[382],"as":[384,1085],"cellular":[385,1244],"communities":[386,1245],"original":[389],"study)":[390],"k-means":[395],"relative":[398],"cell-type":[399],"composition":[400],"within":[401],"150\u00b5m":[402],"cell.":[405],"STARmap":[406,413,438],"PLUS":[407,414,439],"(STARmap_plus)":[411],"[5]":[418],"(https://zenodo.org/records/8327576).":[423],"20":[428,647],"3":[432,866],"mice.":[433],"1,022":[443],"manually":[451,522,603,686,891,1018],"CCFv3.":[459],"Xenium":[460,467,499,503,551,557,586],"breast":[462,468,492,505,961,967,992],"(xenium-ffpe-bc-idc)":[465],"10x":[475,565,972,1109],"(https://www.10xgenomics.com/datasets/xenium-ffpe-human-breast-with-custom-add-on-panel-1-standard).":[477],"1":[482,573,839,848,1117],"sample":[484,575,610,930,987,1119],"infiltrating":[489],"ductal":[490,534,990],"Analyzer":[500,587],"v1":[509,590],"(280":[510],"genes)":[511],"100":[513],"additional":[514],"matched":[526],"histopathology":[527],"image,":[528],"annotating":[529],"eight":[531],"region":[532],"types:":[533],"in-situ,":[536],"invasive":[537,989],"tumor,":[538],"ducts,":[540],"immune":[541],"cells,":[542],"cysts,":[543],"blood":[544],"vessels,":[545],"adipose":[546],"tissue,":[547],"stroma":[549],"[6].":[550],"(xenium-mouse-brain-SergioSalas)":[555],"genomics":[566],"(https://www.10xgenomics.com/datasets/fresh-frozen-mouse-brain-replicates-1-standard).":[568],"section.":[580],"(247":[596],"genes).":[597],"P56":[609],"Allen":[612,1217],"Atlas":[614],"[3]":[615],"specify":[617],"regions":[619],"[7].":[620],"Slide-seqV2":[621,629,664],"olfactory":[624,632,652],"bulb":[625,633,653],"(slideseq2_olfactory_bulb)":[627],"[8]":[635],"STOmicsDB":[640],"(https://db.cngb.org/stomics/datasets/STDS0000172/data).":[642],"evenly":[654],"spaced":[655],"along":[656],"anterior-posterior":[658],"axis.":[659],"sequenced":[666,727,802,876,1003,1065,1140],"paired-end":[668,729,804,878,1005,1067,1142],"reads":[669,678,730,805,879,1006,1068,1143],"an":[671,881,955,1008,1070,1145],"Illumina":[672,882,1009,1071,1146],"Novaseq6000":[673],"instrument,":[674],"targeting":[675],"million":[677],"per":[679],"sample.":[680],"based":[688,748,893,1020],"marker":[693],"Stereo-seq":[695,701,724,762,768,799],"(stereoseq_liver)":[699],"[9]":[705],"STomicsDB":[710],"(https://db.cngb.org/stomics/lista/spatial).":[712],"6":[717],"samples.":[719],"chips":[725,800,874],"DIPSEQ":[733],"T1":[734],"instrument.":[735,885,1012,1074,1149],"where":[743],"zonation":[744],"layers":[745],"annotated":[747],"differences":[751],"between":[752],"scores":[754],"pericentral":[756],"periportal":[758],"hepatocyte":[759],"landmark":[760],"embryo":[764,770],"(stereoseq_mouse_embryo)":[766],"[10]":[772],"StOmicsDB":[777],"(https://ftp.cngb.org/pub/SciRAID/stomics/STDS0000058/stomics).":[779],"53":[784],"embryos":[789],"E9.5\u2013E16.5":[791],"one-day":[793],"intervals.":[794],"MGI":[808],"DNBSEQ-Tx":[809],"sequencer.":[810],"Constrained":[820],"Clustering":[821],"(SCC),":[822],"which":[823],"is":[824],"built":[825],"top":[827],"Leiden":[830],"algorithm.":[832,958],"Visium":[833,842,873,959,965,1000,1025,1030,1062,1090,1098,1136],"LIBD":[836,845],"DLPFC":[837,846],"(libd_dlpfc)":[840],"[11]":[849],"spatialLIBD":[854],"Bioconductor":[855],"package":[856],"(https://research.libd.org/spatialLIBD).":[857],"12":[862],"donors.":[867],"NovaSeq":[883,1010,1147],"6000":[884,1011,1148],"cytoarchitecture":[895],"selected":[897],"markers.":[899],"osmFISH":[900,908,941],"somatosensory":[903,911,935],"cortex":[904,912],"(osmfish_Ssp)":[906],"[12]":[914],"Linnarsson":[919],"Lab":[920],"(https://linnarssonlab.org/osmFISH).":[922],"single":[928,985],"cortex.":[936],"33-gene":[945],"iterative":[956],"graph-based":[957],"(visium_breast_cancer_SEDR)":[963],"dataset,":[969],"originally":[970],"Genomics":[973,1110],"(https://www.10xgenomics.com/resources/datasets/human-breast-cancer-block-a-section-1-1-standard-1-1-0),":[974],"GitHub":[978],"(https://github.com/JinmiaoChenLab/SEDR_analyses).":[979],"tissue.":[993],"chip":[1001,1063,1138],"H&E":[1023],"image.":[1024],"chicken":[1026,1031],"(visium_chicken_heart)":[1028],"[13]":[1034],"GEO":[1038],"(https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE149457).":[1039],"11":[1044],"four":[1048],"hearts":[1049],"different":[1051],"stages":[1052],"ventricular":[1054],"development.":[1055],"NextSeq":[1072],"500/550":[1073],"Louvain":[1083],"implemented":[1086],"Seurat":[1088],"v3.":[1089],"HD":[1091,1099,1137],"colorectal":[1093,1101,1121],"(Visium_hd_cancer_colon)":[1096],"[14]":[1104],"(https://www.10xgenomics.com/datasets/visium-hd-cytassist-gene-expression-libraries-of-human-crc).":[1112],"sigmoid":[1126],"colon":[1127],"patient.":[1130],"He,":[1150,1258],"S.,":[1151,1211],"Bhatt,":[1152],"R.,":[1153],"Brown,":[1154],"C.":[1155,1239],"et":[1156,1187,1214,1240,1262],"al.":[1157,1188,1215,1241,1263],"High-plex":[1158],"imaging":[1159],"RNA":[1161],"proteins":[1163],"subcellular":[1165],"resolution":[1166],"fixed":[1168],"tissue":[1169],"molecular":[1172,1273],"imaging.":[1173],"Nat":[1174],"Biotechnol":[1175],"40,":[1176],"1794\u20131806":[1177],"(2022).":[1178],"https://doi.org/10.1038/s41587-022-01483-z":[1179],"Yao,":[1180],"Z.,":[1181],"van":[1182],"Velthoven,":[1183],"C.T.J.,":[1184],"Kunst,":[1185],"M.":[1186],"A":[1189,1223],"high-resolution":[1190],"transcriptomic":[1191],"atlas":[1194,1265],"types":[1197],"whole":[1200],"Nature":[1203,1251],"624,":[1204],"317\u2013332":[1205],"(2023).":[1206],"https://doi.org/10.1038/s41586-023-06812-z":[1207],"Wang,":[1208],"Q.,":[1209],"Ding,":[1210],"Li,":[1212],"Y.":[1213,1261],"Mouse":[1218],"Common":[1220],"Coordinate":[1221],"Framework:":[1222],"3D":[1224],"Reference":[1225],"Atlas.":[1226],"Volume":[1228],"181,":[1229],"Issue":[1230],"(2020).":[1232],"https://doi.org/10.1016/j.cell.2020.04.007":[1233],"Farah,":[1234],"E.N.,":[1235],"Hu,":[1236],"R.K.,":[1237],"Kern,":[1238],"organized":[1243],"form":[1246],"developing":[1248],"heart.":[1250],"627,":[1252],"854\u2013864":[1253],"(2024).":[1254],"https://doi.org/10.1038/s41586-024-07171-z":[1255],"Shi,":[1256],"H.,":[1257],"Y.,":[1259],"Zhou,":[1260],"Spatial":[1264],"central":[1269],"nervous":[1270],"system":[1271],"re":[1274]},"counts_by_year":[],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
