{"id":"https://openalex.org/W4417168933","doi":"https://doi.org/10.26599/bdma.2025.9020056","title":"A Comprehensive Review of Cell-Type Deconvolution in Spatial Transcriptomic Data","display_name":"A Comprehensive Review of Cell-Type Deconvolution in Spatial Transcriptomic Data","publication_year":2025,"publication_date":"2025-12-09","ids":{"openalex":"https://openalex.org/W4417168933","doi":"https://doi.org/10.26599/bdma.2025.9020056"},"language":null,"primary_location":{"id":"doi:10.26599/bdma.2025.9020056","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020056","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654","2097-406X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://doi.org/10.26599/bdma.2025.9020056","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028556935","display_name":"Lanying Wang","orcid":"https://orcid.org/0000-0002-5414-0055"},"institutions":[{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lanying Wang","raw_affiliation_strings":["School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101942108","display_name":"Yuxuan Hu","orcid":"https://orcid.org/0000-0002-8830-6893"},"institutions":[{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuxuan Hu","raw_affiliation_strings":["School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103149533","display_name":"Lin Gao","orcid":"https://orcid.org/0000-0002-9441-8920"},"institutions":[{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lin Gao","raw_affiliation_strings":["School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xidian University,Xi&#x0027;an,China,710100","institution_ids":["https://openalex.org/I149594827"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I149594827"],"apc_list":null,"apc_paid":null,"fwci":0.4868,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.70066863,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"9","issue":"1","first_page":"119","last_page":"142"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9980999827384949,"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":0.9980999827384949,"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":0.0003000000142492354,"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/T11829","display_name":"Mathematical Biology Tumor Growth","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/2611","display_name":"Modeling and Simulation"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/deconvolution","display_name":"Deconvolution","score":0.9373000264167786},{"id":"https://openalex.org/keywords/blind-deconvolution","display_name":"Blind deconvolution","score":0.43050000071525574},{"id":"https://openalex.org/keywords/spatial-analysis","display_name":"Spatial analysis","score":0.40869998931884766},{"id":"https://openalex.org/keywords/data-type","display_name":"Data type","score":0.260699987411499}],"concepts":[{"id":"https://openalex.org/C174576160","wikidata":"https://www.wikidata.org/wiki/Q1183700","display_name":"Deconvolution","level":2,"score":0.9373000264167786},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5965999960899353},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4375},{"id":"https://openalex.org/C30044814","wikidata":"https://www.wikidata.org/wiki/Q11334452","display_name":"Blind deconvolution","level":3,"score":0.43050000071525574},{"id":"https://openalex.org/C159620131","wikidata":"https://www.wikidata.org/wiki/Q1938983","display_name":"Spatial analysis","level":2,"score":0.40869998931884766},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3686000108718872},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.31189998984336853},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.29760000109672546},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.262800008058548},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.260699987411499}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.26599/bdma.2025.9020056","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020056","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654","2097-406X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.26599/bdma.2025.9020056","is_oa":true,"landing_page_url":"https://doi.org/10.26599/bdma.2025.9020056","pdf_url":null,"source":{"id":"https://openalex.org/S4210209060","display_name":"Big Data Mining and Analytics","issn_l":"2096-0654","issn":["2096-0654","2097-406X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311901","host_organization_name":"Tsinghua University Press","host_organization_lineage":["https://openalex.org/P4310311901"],"host_organization_lineage_names":["Tsinghua University Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Big Data Mining and Analytics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6849992901","display_name":null,"funder_award_id":"62132015,62350087,U22A2037,62422211","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":127,"referenced_works":["https://openalex.org/W2098098075","https://openalex.org/W2102074241","https://openalex.org/W2117499730","https://openalex.org/W2150576367","https://openalex.org/W2158188286","https://openalex.org/W2471536144","https://openalex.org/W2788357641","https://openalex.org/W2800392236","https://openalex.org/W2899588238","https://openalex.org/W2915848182","https://openalex.org/W2934716754","https://openalex.org/W2945730477","https://openalex.org/W2951158909","https://openalex.org/W2970055262","https://openalex.org/W2972983657","https://openalex.org/W2996171578","https://openalex.org/W3007402690","https://openalex.org/W3022836409","https://openalex.org/W3047081808","https://openalex.org/W3081957388","https://openalex.org/W3084001151","https://openalex.org/W3084033366","https://openalex.org/W3092450854","https://openalex.org/W3096486123","https://openalex.org/W3112563877","https://openalex.org/W3119671877","https://openalex.org/W3121168830","https://openalex.org/W3124439729","https://openalex.org/W3127422037","https://openalex.org/W3129476455","https://openalex.org/W3129790076","https://openalex.org/W3133413949","https://openalex.org/W3134482219","https://openalex.org/W3161009639","https://openalex.org/W3165120573","https://openalex.org/W3184208286","https://openalex.org/W3190202966","https://openalex.org/W3190759848","https://openalex.org/W3198511950","https://openalex.org/W3203689742","https://openalex.org/W3205429975","https://openalex.org/W3208940117","https://openalex.org/W4205817967","https://openalex.org/W4206199829","https://openalex.org/W4206200820","https://openalex.org/W4210683641","https://openalex.org/W4210853280","https://openalex.org/W4213238696","https://openalex.org/W4221092226","https://openalex.org/W4224218779","https://openalex.org/W4225257442","https://openalex.org/W4225272983","https://openalex.org/W4225491855","https://openalex.org/W4236065122","https://openalex.org/W4280533477","https://openalex.org/W4283579418","https://openalex.org/W4284885575","https://openalex.org/W4294073550","https://openalex.org/W4294631386","https://openalex.org/W4297201049","https://openalex.org/W4297243391","https://openalex.org/W4300862018","https://openalex.org/W4306194402","https://openalex.org/W4307953700","https://openalex.org/W4308616040","https://openalex.org/W4311365231","https://openalex.org/W4311404503","https://openalex.org/W4311666191","https://openalex.org/W4312094384","https://openalex.org/W4316506627","https://openalex.org/W4316814309","https://openalex.org/W4317933081","https://openalex.org/W4319440743","https://openalex.org/W4319773543","https://openalex.org/W4323320361","https://openalex.org/W4323926037","https://openalex.org/W4328048773","https://openalex.org/W4362692446","https://openalex.org/W4362701808","https://openalex.org/W4367367908","https://openalex.org/W4377011286","https://openalex.org/W4377093458","https://openalex.org/W4377564316","https://openalex.org/W4378212544","https://openalex.org/W4378515896","https://openalex.org/W4380368096","https://openalex.org/W4381488790","https://openalex.org/W4381548118","https://openalex.org/W4383621593","https://openalex.org/W4384700760","https://openalex.org/W4384816694","https://openalex.org/W4385635695","https://openalex.org/W4385953576","https://openalex.org/W4386034505","https://openalex.org/W4387772687","https://openalex.org/W4388490149","https://openalex.org/W4389246021","https://openalex.org/W4390066212","https://openalex.org/W4390500930","https://openalex.org/W4390990750","https://openalex.org/W4391384008","https://openalex.org/W4391988543","https://openalex.org/W4392167979","https://openalex.org/W4392393035","https://openalex.org/W4393203088","https://openalex.org/W4393392393","https://openalex.org/W4394819521","https://openalex.org/W4394892297","https://openalex.org/W4398218613","https://openalex.org/W4398766875","https://openalex.org/W4399011812","https://openalex.org/W4399025319","https://openalex.org/W4400783289","https://openalex.org/W4401078661","https://openalex.org/W4401332722","https://openalex.org/W4401380386","https://openalex.org/W4401757646","https://openalex.org/W4402634369","https://openalex.org/W4402843505","https://openalex.org/W4403394445","https://openalex.org/W4403853942","https://openalex.org/W4404902753","https://openalex.org/W4407086877","https://openalex.org/W4407451340","https://openalex.org/W4407800756","https://openalex.org/W4408033718","https://openalex.org/W4414887922"],"related_works":[],"abstract_inverted_index":{"Deciphering":[0],"cell-type":[1,46],"composition":[2,31],"is":[3],"critical":[4],"for":[5],"charting":[6],"single-cell":[7,21],"spatial":[8,33,117,127],"maps":[9],"and":[10,32,41,81,99,129,144],"cellular":[11],"atlases":[12],"of":[13,35,63,72,83,115],"organisms.":[14],"Most":[15],"Spatial":[16],"Transcriptomics":[17],"(ST)":[18],"data":[19],"lack":[20],"resolution,":[22],"computational":[23],"deconvolution":[24,47,74,118],"methods":[25,48,85],"have":[26,49],"emerged":[27],"to":[28,107,122],"characterize":[29],"the":[30,73,79,116,137],"heterogeneity":[34],"different":[36],"cell":[37],"types":[38],"within":[39],"spots":[40],"tissues.":[42],"To":[43,58],"date,":[44],"various":[45],"been":[50],"developed,":[51],"each":[52],"exhibiting":[53],"its":[54],"own":[55],"distinct":[56],"advantages.":[57],"conduct":[59],"a":[60,69],"comprehensive":[61],"review":[62,105],"these":[64,84],"methods,":[65],"we":[66,77],"first":[67],"provide":[68],"formal":[70],"description":[71],"problem.":[75],"Then,":[76],"analyze":[78],"advantages":[80],"pitfalls":[82],"based":[86],"on":[87,132],"their":[88],"mathematical":[89],"models.":[90],"We":[91],"further":[92],"discuss":[93],"related":[94,133],"downstream":[95],"analyses,":[96],"potential":[97],"applications,":[98],"future":[100],"directions.":[101],"In":[102],"summary,":[103],"our":[104],"aims":[106],"guide":[108],"researchers":[109],"in":[110,126],"gaining":[111],"an":[112],"in-depth":[113],"understanding":[114],"problem,":[119],"enabling":[120],"them":[121],"make":[123],"informed":[124],"choices":[125],"analysis":[128],"advance":[130],"research":[131],"fields,":[134],"such":[135],"as":[136],"developmental":[138],"biology,":[139],"tumor":[140],"microenvironment,":[141],"disease":[142],"pathology,":[143],"clinical":[145],"treatments.":[146]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-12-11T00:21:10.989143","created_date":"2025-12-09T00:00:00"}
