{"id":"https://openalex.org/W4393445909","doi":"https://doi.org/10.5281/zenodo.10301912","title":"A large and diverse brain organoid dataset of 1,400 cross-laboratory images of 64 trackable brain organoids from four different clones","display_name":"A large and diverse brain organoid dataset of 1,400 cross-laboratory images of 64 trackable brain organoids from four different clones","publication_year":2023,"publication_date":"2023-04-17","ids":{"openalex":"https://openalex.org/W4393445909","doi":"https://doi.org/10.5281/zenodo.10301912"},"language":"en","primary_location":{"id":"doi:10.5281/zenodo.10301912","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.10301912","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.10301912","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010209112","display_name":"Julian Schr\u00f6ter","orcid":"https://orcid.org/0000-0003-4231-887X"},"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/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Schr\u00f6ter, Julian","raw_affiliation_strings":["University Hospital Heidelberg"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University Hospital Heidelberg","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053639650","display_name":"Luca Deininger","orcid":"https://orcid.org/0009-0005-5125-6422"},"institutions":[{"id":"https://openalex.org/I102335020","display_name":"Karlsruhe Institute of Technology","ror":"https://ror.org/04t3en479","country_code":"DE","type":"education","lineage":["https://openalex.org/I102335020","https://openalex.org/I1305996414"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Deininger, Luca","raw_affiliation_strings":["Karlsruhe Institute of Technology"],"raw_orcid":"https://orcid.org/0009-0005-5125-6422","affiliations":[{"raw_affiliation_string":"Karlsruhe Institute of Technology","institution_ids":["https://openalex.org/I102335020"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071465536","display_name":"Petra Richter","orcid":"https://orcid.org/0000-0003-4848-6567"},"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/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Richter, Petra","raw_affiliation_strings":["University Hospital Heidelberg"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University Hospital Heidelberg","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083154542","display_name":"Steffen Syrbe","orcid":"https://orcid.org/0000-0003-2543-4844"},"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/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Syrbe, Steffen","raw_affiliation_strings":["University Hospital Heidelberg"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University Hospital Heidelberg","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5094313368","display_name":"Blaz Lupse","orcid":null},"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/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Lupse, Blaz","raw_affiliation_strings":["University Hospital Heidelberg"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University Hospital Heidelberg","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001459055","display_name":"Ralf Mikut","orcid":"https://orcid.org/0000-0001-9100-5496"},"institutions":[{"id":"https://openalex.org/I102335020","display_name":"Karlsruhe Institute of Technology","ror":"https://ror.org/04t3en479","country_code":"DE","type":"education","lineage":["https://openalex.org/I102335020","https://openalex.org/I1305996414"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Mikut, Ralf","raw_affiliation_strings":["Karlsruhe Institute of Technology"],"raw_orcid":"https://orcid.org/0000-0001-9100-5496","affiliations":[{"raw_affiliation_string":"Karlsruhe Institute of Technology","institution_ids":["https://openalex.org/I102335020"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081240384","display_name":"Sabine Jung\u2010Klawitter","orcid":"https://orcid.org/0000-0001-8851-672X"},"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/I2802164966","display_name":"University Hospital Heidelberg","ror":"https://ror.org/013czdx64","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I2802164966"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jung-Klawitter, Sabine","raw_affiliation_strings":["University Hospital Heidelberg"],"raw_orcid":"https://orcid.org/0000-0001-8851-672X","affiliations":[{"raw_affiliation_string":"University Hospital Heidelberg","institution_ids":["https://openalex.org/I2802164966","https://openalex.org/I223822909"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"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/T10129","display_name":"Glioma Diagnosis and Treatment","score":0.9528999924659729,"subfield":{"id":"https://openalex.org/subfields/2716","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10129","display_name":"Glioma Diagnosis and Treatment","score":0.9528999924659729,"subfield":{"id":"https://openalex.org/subfields/2716","display_name":"Genetics"},"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/organoid","display_name":"Organoid","score":0.968697726726532},{"id":"https://openalex.org/keywords/brain-tissue","display_name":"Brain tissue","score":0.46587061882019043},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4473438262939453},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.357665479183197},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.18321585655212402}],"concepts":[{"id":"https://openalex.org/C31695470","wikidata":"https://www.wikidata.org/wiki/Q11293125","display_name":"Organoid","level":2,"score":0.968697726726532},{"id":"https://openalex.org/C2986936838","wikidata":"https://www.wikidata.org/wiki/Q492038","display_name":"Brain tissue","level":2,"score":0.46587061882019043},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4473438262939453},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.357665479183197},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.18321585655212402}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.5281/zenodo.10301912","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.10301912","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.10301912","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.10301912","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":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4386439204","https://openalex.org/W2082860237","https://openalex.org/W3033121461","https://openalex.org/W3094248195","https://openalex.org/W3047600752","https://openalex.org/W3047590429","https://openalex.org/W4307092668","https://openalex.org/W3048825385","https://openalex.org/W2811397904","https://openalex.org/W4388777186"],"abstract_inverted_index":{"This":[0,27,39],"dataset":[1,13,28,47],"is":[2,55,125,173],"presented":[3],"in":[4,112,121,156,169,205],"the":[5,63,69,74,80,87,97,102,109,118,134,138,164,170,176,182,186,209],"paper":[6],"A":[7,34,152],"large":[8],"and":[9,104,181,190,199,217],"diverse":[10],"brain":[11,21],"organoid":[12,75,81,90],"of":[14,18,32,96,154,211],"1,400":[15],"cross-laboratory":[16],"images":[17,110,119],"64":[19],"trackable":[20],"organoids":[22,195],"from":[23,202],"four":[24],"different":[25],"clones":[26],"encompasses":[29],"two":[30],"sources":[31],"data:":[33],"comma-separated":[35],"values":[36],"('CSV')":[37],"file.":[38],"file":[40,71,180,184],"serves":[41],"as":[42,137],"a":[43,126],"key":[44],"to":[45],"our":[46],"with":[48,62,133],"one":[49],"image":[50,54,59,103,139,172,179],"per":[51],"row.":[52],"Each":[53],"represented":[56],"by":[57,175],"its":[58],"identifier":[60],"('img_id')":[61],"format":[64],"[org_id]_[clone]_d[imaging_day]_[imaging_lab].":[65],"For":[66,93,106,115,192,215],"each":[67,94],"image,":[68],"CSV":[70,98],"also":[72],"specifies":[73],"size":[76,82,136],"for":[77,143,149],"convenience.":[78],"Alternatively,":[79],"can":[83],"be":[84],"calculated":[85],"using":[86,220],"ground":[88],"truth":[89],"segmentation":[91,216],"(org_segGT).":[92],"row":[95],"file,":[99],"we":[100],"provide":[101],"org_segGT.":[105],"Lab":[107],"A,":[108,145],"are":[111,120],"JPEG":[113],"format.":[114,123],"lab":[116,144,150],"B,":[117],"TIF":[122],"Org_segGT":[124],"manually":[127],"created":[128],"binary":[129],"2D":[130],"NumPy":[131],"array":[132],"same":[135,165],"(1024":[140],"x":[141,147],"768":[142],"1388":[146],"1040":[148],"B).":[151],"value":[153],"1":[155],"org_segGT":[157,183],"at":[158],"position":[159,166],"(x,":[160,167],"y)":[161,168],"means":[162],"that":[163],"corresponding":[171],"covered":[174],"organoid.":[177],"The":[178],"have":[185],"following":[187],"format:":[188],"[img_id].[jpg|tif]":[189],"[img_id].npy.":[191],"day":[193],"12,":[194],"were":[196],"imaged":[197],"before":[198],"after":[200],"embedding":[201],"96-well":[203],"plates":[204],"12-well":[206],"plates,":[207],"allowing":[208],"investigation":[210],"well-specific":[212],"optical":[213],"properties.":[214],"growth":[218],"monitoring":[219],"this":[221],"dataset,":[222],"please":[223],"see":[224],"https://github.com/deiluca/robust_monitoring_organoid_growth.":[225]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2025-10-10T00:00:00"}
