{"id":"https://openalex.org/W6907505924","doi":"https://doi.org/10.2312/vcbm.20231219","title":"Cytosplore Simian Viewer: Visual Exploration for Multi-Species Single-Cell RNA Sequencing Data","display_name":"Cytosplore Simian Viewer: Visual Exploration for Multi-Species Single-Cell RNA Sequencing Data","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W6907505924","doi":"https://doi.org/10.2312/vcbm.20231219"},"language":"en","primary_location":{"id":"pmh:oai:tudelft.nl:uuid:509d2a78-ff26-4cda-8405-e792015b016b","is_oa":true,"landing_page_url":"http://resolver.tudelft.nl/uuid:509d2a78-ff26-4cda-8405-e792015b016b","pdf_url":"https://repository.tudelft.nl/file/File_f60e6d4e-1b5f-43a8-b87f-924216d6f9bc","source":{"id":"https://openalex.org/S4306400906","display_name":"Research Repository (Delft University of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98358874","host_organization_name":"Delft University of Technology","host_organization_lineage":["https://openalex.org/I98358874"],"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":"","raw_type":"conference paper"},"type":"article","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://repository.tudelft.nl/file/File_f60e6d4e-1b5f-43a8-b87f-924216d6f9bc","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Basu, Soumyadeep","orcid":"https://orcid.org/0000-0002-8918-9203"},"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"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Basu, Soumyadeep","raw_affiliation_strings":["Leiden University Medical Center, Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-8918-9203","affiliations":[{"raw_affiliation_string":"Leiden University Medical Center, Netherlands","institution_ids":["https://openalex.org/I2800006345"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Eggermont, Jeroen","orcid":null},"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"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Eggermont, Jeroen","raw_affiliation_strings":["Leiden University Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Leiden University Medical Center","institution_ids":["https://openalex.org/I2800006345"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Kroes, Thomas","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kroes, Thomas","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Jorstad, Nikolas","orcid":"https://orcid.org/0000-0001-7906-9470"},"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":"Jorstad, Nikolas","raw_affiliation_strings":["Allen Institute for Brain Science"],"raw_orcid":"https://orcid.org/0000-0001-7906-9470","affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science","institution_ids":["https://openalex.org/I4210140341","https://openalex.org/I1314596251"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Bakken, Trygve","orcid":null},"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":"Bakken, Trygve","raw_affiliation_strings":["Allen Institute for Brain Science"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science","institution_ids":["https://openalex.org/I4210140341","https://openalex.org/I1314596251"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Lein, Ed","orcid":null},"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":"Lein, Ed","raw_affiliation_strings":["Allen Institute for Brain Science"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science","institution_ids":["https://openalex.org/I4210140341","https://openalex.org/I1314596251"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Lelieveldt, Boudewijn","orcid":null},"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"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Lelieveldt, Boudewijn","raw_affiliation_strings":["Leiden University Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Leiden University Medical Center","institution_ids":["https://openalex.org/I2800006345"]}]},{"author_position":"last","author":{"id":null,"display_name":"H\u00f6llt, Thomas","orcid":"https://orcid.org/0000-0001-8125-1650"},"institutions":[{"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":"H\u00f6llt, Thomas","raw_affiliation_strings":["Delft University of Technology, Netherlands"],"raw_orcid":"https://orcid.org/0000-0001-8125-1650","affiliations":[{"raw_affiliation_string":"Delft University of Technology, Netherlands","institution_ids":["https://openalex.org/I98358874"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I2800006345"],"apc_list":null,"apc_paid":null,"fwci":0.1499,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.61229657,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.989300012588501,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.989300012588501,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.004399999976158142,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.0006000000284984708,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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"}}],"keywords":[{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6650000214576721},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5242000222206116},{"id":"https://openalex.org/keywords/simian","display_name":"Simian","score":0.4830999970436096},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.4327999949455261},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.3619000017642975},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35670000314712524},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.33970001339912415}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6650000214576721},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6394000053405762},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.59170001745224},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5242000222206116},{"id":"https://openalex.org/C2776488936","wikidata":"https://www.wikidata.org/wiki/Q5452918","display_name":"Simian","level":3,"score":0.4830999970436096},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.4327999949455261},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.3619000017642975},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35670000314712524},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3458999991416931},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.33970001339912415},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.3312999904155731},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.32820001244544983},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.32409998774528503},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.30559998750686646},{"id":"https://openalex.org/C19843653","wikidata":"https://www.wikidata.org/wiki/Q213907","display_name":"Model organism","level":3,"score":0.2802000045776367},{"id":"https://openalex.org/C2780977526","wikidata":"https://www.wikidata.org/wiki/Q42417149","display_name":"Data exploration","level":3,"score":0.2784000039100647},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.2736000120639801},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.2696000039577484},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.2687000036239624},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.26499998569488525}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:tudelft.nl:uuid:509d2a78-ff26-4cda-8405-e792015b016b","is_oa":true,"landing_page_url":"http://resolver.tudelft.nl/uuid:509d2a78-ff26-4cda-8405-e792015b016b","pdf_url":"https://repository.tudelft.nl/file/File_f60e6d4e-1b5f-43a8-b87f-924216d6f9bc","source":{"id":"https://openalex.org/S4306400906","display_name":"Research Repository (Delft University of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98358874","host_organization_name":"Delft University of Technology","host_organization_lineage":["https://openalex.org/I98358874"],"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":"","raw_type":"conference paper"},{"id":"doi:10.2312/vcbm.20231219","is_oa":true,"landing_page_url":"https://doi.org/10.2312/vcbm.20231219","pdf_url":null,"source":{"id":"https://openalex.org/S7407052899","display_name":"Eurographics","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":""}],"best_oa_location":{"id":"pmh:oai:tudelft.nl:uuid:509d2a78-ff26-4cda-8405-e792015b016b","is_oa":true,"landing_page_url":"http://resolver.tudelft.nl/uuid:509d2a78-ff26-4cda-8405-e792015b016b","pdf_url":"https://repository.tudelft.nl/file/File_f60e6d4e-1b5f-43a8-b87f-924216d6f9bc","source":{"id":"https://openalex.org/S4306400906","display_name":"Research Repository (Delft University of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98358874","host_organization_name":"Delft University of Technology","host_organization_lineage":["https://openalex.org/I98358874"],"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":"","raw_type":"conference paper"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.44469040632247925,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G1624889518","display_name":null,"funder_award_id":"024.004.012","funder_id":"https://openalex.org/F4320321800","funder_display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek"},{"id":"https://openalex.org/G1880762225","display_name":null,"funder_award_id":"17126","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":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W6907505924.pdf"},"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"With":[0],"the":[1,13,17,35,50,118,157,161],"rapid":[2],"advances":[3],"in":[4,142,151],"single-cell":[5,28,75,102],"sequencing":[6],"technologies,":[7],"novel":[8],"types":[9,55],"of":[10,16,34,38,47,52,71,101,160],"studies":[11],"into":[12,117],"cell-type":[14],"makeup":[15],"brain":[18],"have":[19],"become":[20],"possible.":[21],"Biologists":[22],"often":[23],"analyze":[24],"large":[25],"and":[26,40,56,94,121,125],"complex":[27],"transcriptomic":[29,103],"datasets":[30,104,147],"to":[31,113,136,156],"enhance":[32],"knowledge":[33],"intricate":[36],"features":[37],"cellular":[39],"molecular":[41],"tissue":[42],"organization.":[43],"A":[44],"particular":[45],"area":[46],"interest":[48],"is":[49],"study":[51],"whether":[53],"cell":[54,119],"their":[57],"gene":[58,122],"regulation":[59],"are":[60],"conserved":[61],"across":[62,69,105],"species":[63,70],"during":[64],"evolution.":[65],"However,":[66],"in-depth":[67],"comparisons":[68],"such":[72],"high-dimensional,":[73],"multi-modal":[74],"data":[76,135],"pose":[77],"considerable":[78],"visualization":[79,88],"challenges.":[80],"This":[81],"paper":[82],"introduces":[83],"Cytosplore":[84,108],"Simian":[85,109],"Viewer,":[86],"a":[87],"system":[89,140],"that":[90],"combines":[91],"various":[92],"views":[93],"linked":[95],"interaction":[96],"methods":[97],"for":[98],"comparative":[99],"analysis":[100],"multiple":[106],"species.":[107,138],"Viewer":[110],"enables":[111],"biologists":[112],"help":[114],"gain":[115],"insights":[116],"type":[120],"expression":[123],"differences":[124],"similarities":[126],"among":[127],"different":[128],"species,":[129],"particularly":[130],"focusing":[131],"on":[132,145],"comparing":[133],"human":[134],"other":[137],"The":[139],"validation":[141],"discovery":[143],"research":[144],"real-world":[146],"demonstrates":[148],"its":[149],"utility":[150],"visualizing":[152],"valuable":[153],"results":[154],"related":[155],"evolutionary":[158],"development":[159],"middle":[162],"temporal":[163],"gyrus.":[164]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-11-06T06:51:31.235846","created_date":"2025-10-10T00:00:00"}
