{"id":"https://openalex.org/W4393507350","doi":"https://doi.org/10.5281/zenodo.7886215","title":"A deep learning-based dataset of WFA-positive perineuronal nets and parvalbumin neurons localizations in the adult mouse brain","display_name":"A deep learning-based dataset of WFA-positive perineuronal nets and parvalbumin neurons localizations in the adult mouse brain","publication_year":2023,"publication_date":"2023-05-02","ids":{"openalex":"https://openalex.org/W4393507350","doi":"https://doi.org/10.5281/zenodo.7886215"},"language":"en","primary_location":{"id":"pmh:oai:ricerca.sns.it:11384/160885","is_oa":false,"landing_page_url":"https://hdl.handle.net/11384/160885","pdf_url":null,"source":{"id":"https://openalex.org/S7407050981","display_name":"Scuola Normale Superiore di Pisa","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/other"},"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.5281/zenodo.7886215","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042393433","display_name":"Leonardo Lupori","orcid":"https://orcid.org/0000-0003-0458-5635"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Lupori, Leonardo","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0003-0458-5635","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045529099","display_name":"Valentino Totaro","orcid":"https://orcid.org/0000-0001-5125-4738"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Totaro, Valentino","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0001-5125-4738","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033904435","display_name":"Sara Cornuti","orcid":"https://orcid.org/0000-0003-3429-3465"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Cornuti, Sara","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0003-3429-3465","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062065690","display_name":"Luca Ciampi","orcid":"https://orcid.org/0000-0002-6985-0439"},"institutions":[{"id":"https://openalex.org/I122991210","display_name":"Istituto di Scienza e Tecnologie dell'Informazione \"Alessandro Faedo\"","ror":"https://ror.org/05kacka20","country_code":"IT","type":"facility","lineage":["https://openalex.org/I122991210","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Ciampi, Luca","raw_affiliation_strings":["Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0002-6985-0439","affiliations":[{"raw_affiliation_string":"Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I122991210"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059447545","display_name":"Fabio Carrara","orcid":"https://orcid.org/0000-0001-5014-5089"},"institutions":[{"id":"https://openalex.org/I122991210","display_name":"Istituto di Scienza e Tecnologie dell'Informazione \"Alessandro Faedo\"","ror":"https://ror.org/05kacka20","country_code":"IT","type":"facility","lineage":["https://openalex.org/I122991210","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Carrara, Fabio","raw_affiliation_strings":["Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0001-5014-5089","affiliations":[{"raw_affiliation_string":"Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I122991210"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004722777","display_name":"Edda Grilli","orcid":null},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Grilli, Edda","raw_affiliation_strings":["University of Pisa, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pisa, Pisa, Italy","institution_ids":["https://openalex.org/I108290504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040900773","display_name":"Aurelia Viglione","orcid":"https://orcid.org/0000-0002-9822-7048"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Viglione, Aurelia","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0002-9822-7048","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049748413","display_name":"Francesca Tozzi","orcid":"https://orcid.org/0000-0003-1597-2681"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Tozzi, Francesca","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0003-1597-2681","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062282121","display_name":"Elena Putignano","orcid":"https://orcid.org/0000-0002-4313-408X"},"institutions":[{"id":"https://openalex.org/I4210113153","display_name":"Neuroscience Institute","ror":"https://ror.org/0240rwx68","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210113153","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Putignano, Elena","raw_affiliation_strings":["Institute of Neuroscience (IN-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0002-4313-408X","affiliations":[{"raw_affiliation_string":"Institute of Neuroscience (IN-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I4210113153"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079782620","display_name":"Raffaele Mazziotti","orcid":null},"institutions":[{"id":"https://openalex.org/I4210113153","display_name":"Neuroscience Institute","ror":"https://ror.org/0240rwx68","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210113153","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Mazziotti, Raffaele","raw_affiliation_strings":["Institute of Neuroscience (IN-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0001-5344-5079","affiliations":[{"raw_affiliation_string":"Institute of Neuroscience (IN-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I4210113153"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072396889","display_name":"Giuseppe Amato","orcid":"https://orcid.org/0000-0003-0171-4315"},"institutions":[{"id":"https://openalex.org/I122991210","display_name":"Istituto di Scienza e Tecnologie dell'Informazione \"Alessandro Faedo\"","ror":"https://ror.org/05kacka20","country_code":"IT","type":"facility","lineage":["https://openalex.org/I122991210","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Amato, Giuseppe","raw_affiliation_strings":["Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0003-0171-4315","affiliations":[{"raw_affiliation_string":"Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I122991210"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072879702","display_name":"Claudio Gennaro","orcid":null},"institutions":[{"id":"https://openalex.org/I122991210","display_name":"Istituto di Scienza e Tecnologie dell'Informazione \"Alessandro Faedo\"","ror":"https://ror.org/05kacka20","country_code":"IT","type":"facility","lineage":["https://openalex.org/I122991210","https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Gennaro, Claudio","raw_affiliation_strings":["Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0002-3715-149X","affiliations":[{"raw_affiliation_string":"Institute of Information Science and Technologies (ISTI-CNR), Pisa, Italy","institution_ids":["https://openalex.org/I122991210"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034122039","display_name":"Paola Tognini","orcid":"https://orcid.org/0000-0001-7055-4701"},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Tognini, Paola","raw_affiliation_strings":["University of Pisa, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0001-7055-4701","affiliations":[{"raw_affiliation_string":"University of Pisa, Pisa, Italy","institution_ids":["https://openalex.org/I108290504"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016100084","display_name":"Tommaso Pizzorusso","orcid":"https://orcid.org/0000-0001-5614-0668"},"institutions":[{"id":"https://openalex.org/I157210198","display_name":"Scuola Normale Superiore","ror":"https://ror.org/03aydme10","country_code":"IT","type":"education","lineage":["https://openalex.org/I157210198"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Pizzorusso, Tommaso","raw_affiliation_strings":["BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy"],"raw_orcid":"https://orcid.org/0000-0001-5614-0668","affiliations":[{"raw_affiliation_string":"BIO@SNS lab, Scuola Normale Superiore, Pisa, Italy","institution_ids":["https://openalex.org/I157210198"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":14,"corresponding_author_ids":["https://openalex.org/A5042393433"],"corresponding_institution_ids":["https://openalex.org/I157210198"],"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":false,"primary_topic":{"id":"https://openalex.org/T11184","display_name":"Neonatal and fetal brain pathology","score":0.7141000032424927,"subfield":{"id":"https://openalex.org/subfields/2735","display_name":"Pediatrics, Perinatology and Child Health"},"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/T11184","display_name":"Neonatal and fetal brain pathology","score":0.7141000032424927,"subfield":{"id":"https://openalex.org/subfields/2735","display_name":"Pediatrics, Perinatology and Child Health"},"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/perineuronal-net","display_name":"Perineuronal net","score":0.9738640785217285},{"id":"https://openalex.org/keywords/parvalbumin","display_name":"Parvalbumin","score":0.9404597878456116},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.5092283487319946},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41035473346710205},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.37610024213790894},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33535104990005493}],"concepts":[{"id":"https://openalex.org/C129987498","wikidata":"https://www.wikidata.org/wiki/Q7168586","display_name":"Perineuronal net","level":3,"score":0.9738640785217285},{"id":"https://openalex.org/C141547260","wikidata":"https://www.wikidata.org/wiki/Q2720322","display_name":"Parvalbumin","level":2,"score":0.9404597878456116},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.5092283487319946},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41035473346710205},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.37610024213790894},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33535104990005493}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:ricerca.sns.it:11384/160885","is_oa":false,"landing_page_url":"https://hdl.handle.net/11384/160885","pdf_url":null,"source":{"id":"https://openalex.org/S7407050981","display_name":"Scuola Normale Superiore di Pisa","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/other"},{"id":"doi:10.5281/zenodo.7886215","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.7886215","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.7886215","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.7886215","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/W2067305257","https://openalex.org/W2907076408","https://openalex.org/W2045100245","https://openalex.org/W1997720118","https://openalex.org/W2056340175","https://openalex.org/W2026501309","https://openalex.org/W4288018038","https://openalex.org/W4383896432","https://openalex.org/W2051890767","https://openalex.org/W2268380328"],"abstract_inverted_index":{"<strong>Quality-controlled":[0],"predictions":[1],"of":[2,17,32,84,122,133,142,160,170,193],"deep":[3],"learning":[4],"models":[5,65],"for":[6,14,66,183,208,211],"cell":[7,67,97,124],"counting</strong>":[8],"This":[9],"dataset":[10,46,138],"contains":[11,139],"high-resolution":[12],"images":[13,141,155,199],"the":[15,27,41,48,75,85,92,102,112,134,157,168,171,191,205],"visualization":[16],"perineuronal":[18],"nets":[19],"(PNNs)":[20],"and":[21,36,110,175],"parvalbumin-expressing":[22],"(PV)":[23],"cells":[24,114,162],"analyzed":[25],"in":[26,40,74,153,166],"paper:":[28],"<em>A":[29],"Comprehensive":[30],"Atlas":[31],"Perineuronal":[33],"Net":[34],"Distribution":[35],"Colocalization":[37],"with":[38,104,115,190],"Parvalbumin":[39],"Adult":[42],"Mouse":[43],"Brain.</em>":[44],"The":[45,82,137,150],"integrates":[47],"raw":[49],"data":[50],"published":[51],"on":[52,56,71,91],"a":[53,105,116,202],"previous":[54],"upload":[55],"Zenodo.":[57],"Cell":[58],"locations":[59],"were":[60,126,164],"obtained":[61],"using":[62],"two":[63],"deep-learning":[64,86],"counting":[68],"(publicly":[69],"available":[70],"GitHub,":[72],"details":[73],"paper":[76],"by":[77,99,130],"Ciampi":[78],"et":[79],"al.,":[80],"2022).":[81],"output":[83],"pipeline":[87],"was":[88],"filtered":[89],"based":[90],"<em>score</em>":[93],"assigned":[94,201],"to":[95],"each":[96,184,197],"prediction,":[98],"removing":[100],"all":[101,111,167],"PNNs":[103],"score":[106,117],"lower":[107,118],"than":[108,119],"0.4":[109],"PV":[113,212],"0.55.":[120],"Cases":[121],"artefactual":[123],"detection":[125],"finally":[127],"removed":[128],"manually":[129],"visual":[131],"inspection":[132],"images.":[135],"<strong>Content</strong>":[136],"microscopy":[140],"coronal":[143],"brain":[144],"slices":[145],"from":[146],"7":[147],"adult":[148],"mice.":[149],"objects":[151],"highlighted":[152],"these":[154],"represent":[156],"final":[158],"set":[159],"PNNs/PV":[161],"that":[163,194],"used":[165],"analysis":[169],"paper.":[172],"<strong>Folder":[173],"Structure":[174],"file":[176],"naming":[177],"conventions</strong>":[178],"There":[179],"are":[180,200],"separate":[181],"folders":[182],"mouse.":[185,195],"Each":[186],"folder":[187],"is":[188],"named":[189],"ID":[192],"Within":[196],"folder,":[198],"code":[203],"specifying":[204],"channel":[206],"(C1":[207],"PNNs,":[209],"C2":[210],"cells).":[213]},"counts_by_year":[],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
