{"id":"https://openalex.org/W4409086971","doi":"https://doi.org/10.1093/bioinformatics/btaf142","title":"HISSTA: a human in situ single-cell transcriptome atlas","display_name":"HISSTA: a human in situ single-cell transcriptome atlas","publication_year":2025,"publication_date":"2025-03-29","ids":{"openalex":"https://openalex.org/W4409086971","doi":"https://doi.org/10.1093/bioinformatics/btaf142","pmid":"https://pubmed.ncbi.nlm.nih.gov/40163697"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf142","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf142","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bioinformatics/btaf142","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091188655","display_name":"Jiwon Yu","orcid":null},"institutions":[{"id":"https://openalex.org/I138925566","display_name":"Ewha Womans University","ror":"https://ror.org/053fp5c05","country_code":"KR","type":"education","lineage":["https://openalex.org/I138925566"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Jiwon Yu","raw_affiliation_strings":["Department of Life Science, Ewha Womans University , Seoul 03760,","Ewha Womans University Department of Life Science, , Seoul 03760, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Science, Ewha Womans University , Seoul 03760,","institution_ids":["https://openalex.org/I138925566"]},{"raw_affiliation_string":"Ewha Womans University Department of Life Science, , Seoul 03760, Republic of","institution_ids":["https://openalex.org/I138925566"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Jiwoo Moon","orcid":null},"institutions":[{"id":"https://openalex.org/I138925566","display_name":"Ewha Womans University","ror":"https://ror.org/053fp5c05","country_code":"KR","type":"education","lineage":["https://openalex.org/I138925566"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Jiwoo Moon","raw_affiliation_strings":["Department of Life Science, Ewha Womans University , Seoul 03760,","Ewha Womans University Department of Life Science, , Seoul 03760, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Science, Ewha Womans University , Seoul 03760,","institution_ids":["https://openalex.org/I138925566"]},{"raw_affiliation_string":"Ewha Womans University Department of Life Science, , Seoul 03760, Republic of","institution_ids":["https://openalex.org/I138925566"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100671470","display_name":"Minseo Kim","orcid":"https://orcid.org/0000-0001-9234-5011"},"institutions":[{"id":"https://openalex.org/I73616290","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I73616290"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Minseo Kim","raw_affiliation_strings":["Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","institution_ids":["https://openalex.org/I73616290"]},{"raw_affiliation_string":"Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of","institution_ids":["https://openalex.org/I73616290"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008451518","display_name":"Gye Won Han","orcid":"https://orcid.org/0000-0003-4107-835X"},"institutions":[{"id":"https://openalex.org/I138925566","display_name":"Ewha Womans University","ror":"https://ror.org/053fp5c05","country_code":"KR","type":"education","lineage":["https://openalex.org/I138925566"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Gyeol Han","raw_affiliation_strings":["Department of Life Science, Ewha Womans University , Seoul 03760,","Ewha Womans University Department of Life Science, , Seoul 03760, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Science, Ewha Womans University , Seoul 03760,","institution_ids":["https://openalex.org/I138925566"]},{"raw_affiliation_string":"Ewha Womans University Department of Life Science, , Seoul 03760, Republic of","institution_ids":["https://openalex.org/I138925566"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057172766","display_name":"Insu Jang","orcid":"https://orcid.org/0000-0003-0390-2715"},"institutions":[{"id":"https://openalex.org/I73616290","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I73616290"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Insu Jang","raw_affiliation_strings":["Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","institution_ids":["https://openalex.org/I73616290"]},{"raw_affiliation_string":"Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of","institution_ids":["https://openalex.org/I73616290"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044823572","display_name":"Jinyoung Lim","orcid":null},"institutions":[{"id":"https://openalex.org/I4210106485","display_name":"GeneMatrix (South Korea)","ror":"https://ror.org/012b6r490","country_code":"KR","type":"company","lineage":["https://openalex.org/I4210106485"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Jinyoung Lim","raw_affiliation_strings":["R&D Division, Geninus Inc. , Seoul 05836,","Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"R&D Division, Geninus Inc. , Seoul 05836,","institution_ids":["https://openalex.org/I4210106485"]},{"raw_affiliation_string":"Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089371394","display_name":"Seungmook Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I138925566","display_name":"Ewha Womans University","ror":"https://ror.org/053fp5c05","country_code":"KR","type":"education","lineage":["https://openalex.org/I138925566"]},{"id":"https://openalex.org/I4210106485","display_name":"GeneMatrix (South Korea)","ror":"https://ror.org/012b6r490","country_code":"KR","type":"company","lineage":["https://openalex.org/I4210106485"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Seungmook Lee","raw_affiliation_strings":["Department of Life Science, Ewha Womans University , Seoul 03760,","R&D Division, Geninus Inc. , Seoul 05836,","Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Science, Ewha Womans University , Seoul 03760,","institution_ids":["https://openalex.org/I138925566"]},{"raw_affiliation_string":"R&D Division, Geninus Inc. , Seoul 05836,","institution_ids":["https://openalex.org/I4210106485"]},{"raw_affiliation_string":"Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112246328","display_name":"Seok-Hwan Yoon","orcid":null},"institutions":[{"id":"https://openalex.org/I4210106485","display_name":"GeneMatrix (South Korea)","ror":"https://ror.org/012b6r490","country_code":"KR","type":"company","lineage":["https://openalex.org/I4210106485"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Seok-Hwan Yoon","raw_affiliation_strings":["R&D Division, Geninus Inc. , Seoul 05836,","Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"R&D Division, Geninus Inc. , Seoul 05836,","institution_ids":["https://openalex.org/I4210106485"]},{"raw_affiliation_string":"Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003283147","display_name":"Woong\u2010Yang Park","orcid":"https://orcid.org/0000-0003-4234-0380"},"institutions":[{"id":"https://openalex.org/I4210106485","display_name":"GeneMatrix (South Korea)","ror":"https://ror.org/012b6r490","country_code":"KR","type":"company","lineage":["https://openalex.org/I4210106485"]},{"id":"https://openalex.org/I4210147894","display_name":"Institut de Recherche et d\u2019Innovation","ror":"https://ror.org/04nqadf13","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210147894"]}],"countries":["FR","KR"],"is_corresponding":false,"raw_author_name":"Woong-Yang Park","raw_affiliation_strings":["GxD Inc. , Kashiwa, Chiba 277-0882,","R&D Division, Geninus Inc. , Seoul 05836,","Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of","GxD Inc ., 6 Chome-6-2-4F Kashiwanoha, Kashiwa, Chiba 277-0882,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"GxD Inc. , Kashiwa, Chiba 277-0882,","institution_ids":["https://openalex.org/I4210147894"]},{"raw_affiliation_string":"R&D Division, Geninus Inc. , Seoul 05836,","institution_ids":["https://openalex.org/I4210106485"]},{"raw_affiliation_string":"Geninus Inc ., 4th Fl. KDU tower, 70 Jungeui-ro, Songpa-gu, Seoul 05836, Republic of","institution_ids":[]},{"raw_affiliation_string":"GxD Inc ., 6 Chome-6-2-4F Kashiwanoha, Kashiwa, Chiba 277-0882,","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103262401","display_name":"Byung-Wook Lee","orcid":"https://orcid.org/0000-0003-2083-8508"},"institutions":[{"id":"https://openalex.org/I73616290","display_name":"Korea Research Institute of Bioscience and Biotechnology","ror":"https://ror.org/03ep23f07","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I73616290"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Byungwook Lee","raw_affiliation_strings":["Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Korean Bioinformation Center (KOBIC), Korean Research Institute of Bioscience and Biotechnology , Daejeon 34141,","institution_ids":["https://openalex.org/I73616290"]},{"raw_affiliation_string":"Korean Research Institute of Bioscience and Biotechnology Korean Bioinformation Center (KOBIC), , Daejeon 34141, Republic of","institution_ids":["https://openalex.org/I73616290"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5109345832","display_name":"Sanghyuk Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I138925566","display_name":"Ewha Womans University","ror":"https://ror.org/053fp5c05","country_code":"KR","type":"education","lineage":["https://openalex.org/I138925566"]},{"id":"https://openalex.org/I4210106485","display_name":"GeneMatrix (South Korea)","ror":"https://ror.org/012b6r490","country_code":"KR","type":"company","lineage":["https://openalex.org/I4210106485"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Sanghyuk Lee","raw_affiliation_strings":["Department of Life Science, Ewha Womans University , Seoul 03760,","R&D Division, Geninus Inc. , Seoul 05836,","Ewha Womans University Department of Life Science, , Seoul 03760, Republic of"],"raw_orcid":"https://orcid.org/0000-0001-9230-7461","affiliations":[{"raw_affiliation_string":"Department of Life Science, Ewha Womans University , Seoul 03760,","institution_ids":["https://openalex.org/I138925566"]},{"raw_affiliation_string":"R&D Division, Geninus Inc. , Seoul 05836,","institution_ids":["https://openalex.org/I4210106485"]},{"raw_affiliation_string":"Ewha Womans University Department of Life Science, , Seoul 03760, Republic of","institution_ids":["https://openalex.org/I138925566"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":11,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.0984,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.75441967,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"41","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9995999932289124,"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":0.9995999932289124,"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":9.999999747378752e-05,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.0,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"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/annotation","display_name":"Annotation","score":0.6872805953025818},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6413045525550842},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5709479451179504},{"id":"https://openalex.org/keywords/decipher","display_name":"DECIPHER","score":0.544527530670166},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5097252726554871},{"id":"https://openalex.org/keywords/spatial-analysis","display_name":"Spatial analysis","score":0.47638028860092163},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44219446182250977},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.4240923821926117},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3635983467102051},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.270662784576416},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.23469874262809753},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17999359965324402},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1788068413734436},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15791624784469604},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.15083542466163635}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6872805953025818},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6413045525550842},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5709479451179504},{"id":"https://openalex.org/C164614171","wikidata":"https://www.wikidata.org/wiki/Q5204775","display_name":"DECIPHER","level":2,"score":0.544527530670166},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5097252726554871},{"id":"https://openalex.org/C159620131","wikidata":"https://www.wikidata.org/wiki/Q1938983","display_name":"Spatial analysis","level":2,"score":0.47638028860092163},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44219446182250977},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.4240923821926117},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3635983467102051},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.270662784576416},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.23469874262809753},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17999359965324402},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1788068413734436},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15791624784469604},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.15083542466163635},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C62649853","wikidata":"https://www.wikidata.org/wiki/Q199687","display_name":"Remote sensing","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C127313418","wikidata":"https://www.wikidata.org/wiki/Q1069","display_name":"Geology","level":0,"score":0.0}],"mesh":[{"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaf142","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf142","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40163697","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40163697","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12002909","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12002909","pdf_url":null,"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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf142","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf142","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3938677158","display_name":null,"funder_award_id":"2024M3H9A2044974","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G7146388109","display_name":null,"funder_award_id":"2020M3A916A0036057","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"}],"funders":[{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W2020541351","https://openalex.org/W2042789810","https://openalex.org/W2214074259","https://openalex.org/W2471536144","https://openalex.org/W2612519453","https://openalex.org/W2767616405","https://openalex.org/W2794480084","https://openalex.org/W2800392236","https://openalex.org/W2959295202","https://openalex.org/W2986870495","https://openalex.org/W3023701177","https://openalex.org/W4224040179","https://openalex.org/W4229033508","https://openalex.org/W4306353205","https://openalex.org/W4307357496","https://openalex.org/W4327857160","https://openalex.org/W4384819322","https://openalex.org/W4385581018","https://openalex.org/W4386947393","https://openalex.org/W4387326098","https://openalex.org/W4387440761","https://openalex.org/W4388615936","https://openalex.org/W4389938094","https://openalex.org/W4390064086","https://openalex.org/W4393307128","https://openalex.org/W4402171859","https://openalex.org/W4402604581","https://openalex.org/W4402926830","https://openalex.org/W4408414133","https://openalex.org/W6770661763"],"related_works":["https://openalex.org/W2115350162","https://openalex.org/W2330145053","https://openalex.org/W4249875204","https://openalex.org/W4242620632","https://openalex.org/W3205440178","https://openalex.org/W2416520078","https://openalex.org/W2147420874","https://openalex.org/W2113606293","https://openalex.org/W2409656713","https://openalex.org/W4379618494"],"abstract_inverted_index":{"MOTIVATION:":[0],"Spatial":[1],"transcriptomics":[2],"holds":[3],"great":[4],"promise":[5],"for":[6,124],"revolutionizing":[7],"biology":[8],"and":[9,56,71,88,98,104,133,139,154,184,201],"medicine":[10],"by":[11,38,94],"providing":[12],"gene":[13,156],"expression":[14,157],"profiles":[15],"with":[16,58,188],"spatial":[17,21,90,117,128,130],"information.":[18],"Until":[19],"recently,":[20],"resolution":[22,80],"has":[23],"been":[24],"limited,":[25],"but":[26],"advances":[27],"in":[28,30,74,158,173],"high-throughput":[29],"situ":[31,75,174],"imaging":[32],"technologies":[33],"now":[34],"offer":[35],"new":[36],"opportunities":[37],"covering":[39],"thousands":[40],"of":[41,73,152,172],"genes":[42],"at":[43,78,176,211,218],"a":[44,162],"single-cell":[45,79,177],"or":[46],"even":[47],"subcellular":[48],"resolution,":[49],"necessitating":[50],"databases":[51],"dedicated":[52],"to":[53,148,166,194],"comprehensive":[54,181],"coverage":[55],"analysis":[57,72,186],"user-friendly":[59],"intefaces.":[60],"RESULTS:":[61],"We":[62,85],"introduce":[63],"the":[64,69,168],"HISSTA":[65,160,191,207],"database,":[66],"which":[67],"facilitates":[68],"archival":[70],"transcriptome":[76,91],"data":[77,92,182],"from":[81,112],"various":[82],"human":[83],"tissues.":[84],"have":[86,120],"collected":[87],"annotated":[89],"generated":[93],"MERFISH,":[95],"CosMx":[96],"SMI,":[97],"Xenium":[99],"techniques,":[100],"encompassing":[101],"112":[102],"samples":[103],"28":[105],"million":[106],"cells":[107],"across":[108],"16":[109],"tissue":[110],"types":[111],"63":[113],"studies.":[114],"To":[115],"decipher":[116],"contexts,":[118],"we":[119],"implemented":[121],"advanced":[122,185],"tools":[123,187],"cell":[125],"type":[126],"annotation,":[127],"colocalization,":[129],"cellular":[131],"communication,":[132],"niche":[134],"analyses.":[135],"Notably,":[136],"all":[137],"datasets":[138],"annotations":[140],"are":[141],"interactively":[142],"accessible":[143,210],"through":[144],"Vitessce,":[145],"allowing":[146],"users":[147],"focus":[149],"on":[150],"regions":[151],"interest":[153],"examine":[155],"detail.":[159],"is":[161,192,208,216],"unique":[163],"database":[164],"designed":[165],"manage":[167],"rapidly":[169],"growing":[170],"dataset":[171],"transcriptomes":[175],"resolution.":[178],"Given":[179],"its":[180],"content":[183],"interactive":[189],"visualizations,":[190],"poised":[193],"significantly":[195],"impact":[196],"cancer":[197],"diagnosis,":[198],"precision":[199],"medicine,":[200],"digital":[202],"pathology.":[203],"AVAILABILITY":[204],"AND":[205],"IMPLEMENTATION:":[206],"freely":[209],"https://kbds.re.kr/hissta/.":[212],"The":[213],"source":[214],"code":[215],"available":[217],"https://doi.org/10.5281/zenodo.14904523.":[219]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-06-23T13:55:30.953635","created_date":"2025-10-10T00:00:00"}
