{"id":"https://openalex.org/W4402865921","doi":"https://doi.org/10.1186/s40708-024-00236-9","title":"Enhancing brain image quality with 3D U-net for stripe removal in light sheet fluorescence microscopy","display_name":"Enhancing brain image quality with 3D U-net for stripe removal in light sheet fluorescence microscopy","publication_year":2024,"publication_date":"2024-09-26","ids":{"openalex":"https://openalex.org/W4402865921","doi":"https://doi.org/10.1186/s40708-024-00236-9","pmid":"https://pubmed.ncbi.nlm.nih.gov/39325110"},"language":"en","primary_location":{"id":"doi:10.1186/s40708-024-00236-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40708-024-00236-9","pdf_url":"https://link.springer.com/content/pdf/10.1186/s40708-024-00236-9.pdf","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s40708-024-00236-9.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5109789743","display_name":"Changshan Li","orcid":null},"institutions":[{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Changshan Li","raw_affiliation_strings":["Institute for Brain and Intelligence, Southeast University, Nanjing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Brain and Intelligence, Southeast University, Nanjing, China","institution_ids":["https://openalex.org/I76569877"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001159156","display_name":"Youqi Li","orcid":"https://orcid.org/0000-0003-3867-5997"},"institutions":[{"id":"https://openalex.org/I183519381","display_name":"Capital Medical University","ror":"https://ror.org/013xs5b60","country_code":"CN","type":"education","lineage":["https://openalex.org/I183519381"]},{"id":"https://openalex.org/I4210087691","display_name":"Beijing Tian Tan Hospital","ror":"https://ror.org/003regz62","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210087691"]},{"id":"https://openalex.org/I4210115644","display_name":"Chinese Institute for Brain Research","ror":"https://ror.org/029819q61","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210115644"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Youqi Li","raw_affiliation_strings":["Chinese Institute for Brain Research, Beijing, China","Department of Neurology, Beijing Tiantan Hospital, Capital Medical University, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Institute for Brain Research, Beijing, China","institution_ids":["https://openalex.org/I4210115644"]},{"raw_affiliation_string":"Department of Neurology, Beijing Tiantan Hospital, Capital Medical University, Beijing, China","institution_ids":["https://openalex.org/I4210087691","https://openalex.org/I183519381"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042903123","display_name":"Hu Zhao","orcid":"https://orcid.org/0000-0002-2961-0086"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210115644","display_name":"Chinese Institute for Brain Research","ror":"https://ror.org/029819q61","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210115644"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hu Zhao","raw_affiliation_strings":["Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China","Chinese Institute for Brain Research, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"Chinese Institute for Brain Research, Beijing, China","institution_ids":["https://openalex.org/I4210115644"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027506122","display_name":"Liya Ding","orcid":"https://orcid.org/0000-0002-1209-875X"},"institutions":[{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Liya Ding","raw_affiliation_strings":["Institute for Brain and Intelligence, Southeast University, Nanjing, China. dinglyosu@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Brain and Intelligence, Southeast University, Nanjing, China. dinglyosu@gmail.com","institution_ids":["https://openalex.org/I76569877"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5027506122"],"corresponding_institution_ids":["https://openalex.org/I76569877"],"apc_list":{"value":790,"currency":"GBP","value_usd":969},"apc_paid":{"value":790,"currency":"GBP","value_usd":969},"fwci":2.3164,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.89462332,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"11","issue":"1","first_page":"24","last_page":"24"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9993000030517578,"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"}},"topics":[{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9993000030517578,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9991999864578247,"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/T13114","display_name":"Image Processing Techniques and Applications","score":0.9966999888420105,"subfield":{"id":"https://openalex.org/subfields/2214","display_name":"Media Technology"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/light-sheet-fluorescence-microscopy","display_name":"Light sheet fluorescence microscopy","score":0.8839465379714966},{"id":"https://openalex.org/keywords/microscopy","display_name":"Microscopy","score":0.6047468185424805},{"id":"https://openalex.org/keywords/fluorescence","display_name":"Fluorescence","score":0.5694488883018494},{"id":"https://openalex.org/keywords/image-quality","display_name":"Image quality","score":0.5329044461250305},{"id":"https://openalex.org/keywords/fluorescence-microscope","display_name":"Fluorescence microscope","score":0.5089154243469238},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.4551697373390198},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.4219058156013489},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.24801680445671082},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.24163055419921875},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.16544151306152344},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.15822336077690125}],"concepts":[{"id":"https://openalex.org/C113976765","wikidata":"https://www.wikidata.org/wiki/Q1823502","display_name":"Light sheet fluorescence microscopy","level":4,"score":0.8839465379714966},{"id":"https://openalex.org/C147080431","wikidata":"https://www.wikidata.org/wiki/Q1074953","display_name":"Microscopy","level":2,"score":0.6047468185424805},{"id":"https://openalex.org/C91881484","wikidata":"https://www.wikidata.org/wiki/Q191807","display_name":"Fluorescence","level":2,"score":0.5694488883018494},{"id":"https://openalex.org/C55020928","wikidata":"https://www.wikidata.org/wiki/Q3813865","display_name":"Image quality","level":3,"score":0.5329044461250305},{"id":"https://openalex.org/C169274487","wikidata":"https://www.wikidata.org/wiki/Q840211","display_name":"Fluorescence microscope","level":3,"score":0.5089154243469238},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.4551697373390198},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.4219058156013489},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.24801680445671082},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.24163055419921875},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.16544151306152344},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.15822336077690125}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/s40708-024-00236-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40708-024-00236-9","pdf_url":"https://link.springer.com/content/pdf/10.1186/s40708-024-00236-9.pdf","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},{"id":"pmid:39325110","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39325110","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":"Brain informatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11427638","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11427638","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11427638/pdf/40708_2024_Article_236.pdf","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brain Inform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:6006f02f6bfb494b86be0d9ad2730753","is_oa":false,"landing_page_url":"https://doaj.org/article/6006f02f6bfb494b86be0d9ad2730753","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"Brain Informatics, Vol 11, Iss 1, Pp 1-17 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s40708-024-00236-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40708-024-00236-9","pdf_url":"https://link.springer.com/content/pdf/10.1186/s40708-024-00236-9.pdf","source":{"id":"https://openalex.org/S2498492389","display_name":"Brain Informatics","issn_l":"2198-4018","issn":["2198-4018","2198-4026"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Brain Informatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2623765598","display_name":null,"funder_award_id":"2242022R10089","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G3124497070","display_name":null,"funder_award_id":"U20A6005","funder_id":"https://openalex.org/F4320336213","funder_display_name":"National Natural Science Foundation of China-Guangdong Joint Fund"},{"id":"https://openalex.org/G6848379360","display_name":null,"funder_award_id":"U20A6005","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"},{"id":"https://openalex.org/F4320321435","display_name":"Anhui University","ror":"https://ror.org/05th6yx34"},{"id":"https://openalex.org/F4320324856","display_name":"Southeast University","ror":"https://ror.org/04ct4d772"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null},{"id":"https://openalex.org/F4320336213","display_name":"National Natural Science Foundation of China-Guangdong Joint Fund","ror":null}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4402865921.pdf"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1967231175","https://openalex.org/W1988546517","https://openalex.org/W2030796584","https://openalex.org/W2037642501","https://openalex.org/W2046451474","https://openalex.org/W2064259337","https://openalex.org/W2067291138","https://openalex.org/W2087451538","https://openalex.org/W2100495367","https://openalex.org/W2110021835","https://openalex.org/W2154580172","https://openalex.org/W2158821123","https://openalex.org/W2161907179","https://openalex.org/W2326502117","https://openalex.org/W2464708700","https://openalex.org/W2508457857","https://openalex.org/W2515271729","https://openalex.org/W2615331742","https://openalex.org/W2732931556","https://openalex.org/W2734118241","https://openalex.org/W2807154993","https://openalex.org/W2915958941","https://openalex.org/W2918347797","https://openalex.org/W2929906481","https://openalex.org/W2962860144","https://openalex.org/W2980846635","https://openalex.org/W3006529112","https://openalex.org/W3021818310","https://openalex.org/W3139939952","https://openalex.org/W3184286336","https://openalex.org/W3212368770","https://openalex.org/W3217467156","https://openalex.org/W4200271479","https://openalex.org/W4210656521","https://openalex.org/W4226126985","https://openalex.org/W4226509277","https://openalex.org/W4229990324","https://openalex.org/W4285127375","https://openalex.org/W4293163116","https://openalex.org/W4312466326","https://openalex.org/W4379523016","https://openalex.org/W4381839597","https://openalex.org/W4385330534","https://openalex.org/W4389338943","https://openalex.org/W4389371479","https://openalex.org/W4390519222"],"related_works":["https://openalex.org/W2586711169","https://openalex.org/W2094643072","https://openalex.org/W4206210906","https://openalex.org/W4251922430","https://openalex.org/W3179188441","https://openalex.org/W4297897531","https://openalex.org/W29697196","https://openalex.org/W2612885984","https://openalex.org/W3134327749","https://openalex.org/W2006721351"],"abstract_inverted_index":{"Light":[0,83],"Sheet":[1],"Fluorescence":[2],"Microscopy":[3],"(LSFM)":[4],"is":[5],"increasingly":[6],"popular":[7],"in":[8,30,41,49,55,82,95,144,184],"neuroimaging":[9],"for":[10,79],"its":[11,182,206],"ability":[12],"to":[13,105,119,150,161,198,208],"capture":[14],"high-resolution":[15],"3D":[16,32,67,76,96],"neural":[17],"data.":[18,164],"However,":[19],"the":[20,64,130,189],"presence":[21],"of":[22,66,109,191],"stripe":[23,45,131],"noise":[24,51],"significantly":[25],"degrades":[26],"image":[27,186,210],"quality,":[28],"particularly":[29],"complex":[31],"stripes":[33,60,94,108],"with":[34,58,63],"varying":[35,110],"widths":[36],"and":[37,52,92,124,173],"brightness,":[38],"posing":[39],"challenges":[40],"neuroscience":[42],"research.":[43],"Existing":[44],"removal":[46,132],"algorithms":[47],"excel":[48],"suppressing":[50],"preserving":[53],"details":[54],"2D":[56],"images":[57],"simple":[59],"but":[61],"struggle":[62],"complexity":[65],"stripes.":[68],"To":[69],"address":[70],"this,":[71],"we":[72,113],"propose":[73],"a":[74,102,115],"novel":[75],"U-net":[77],"model":[78],"Stripe":[80],"Removal":[81],"sheet":[84],"fluorescence":[85],"microscopy":[86],"(USRL).":[87],"This":[88,203],"approach":[89,177],"directly":[90],"learns":[91],"removes":[93],"space":[97],"across":[98,212],"different":[99],"scales,":[100],"employing":[101],"dual-resolution":[103],"strategy":[104],"effectively":[106],"handle":[107],"complexities.":[111],"Additionally,":[112],"integrate":[114],"nonlinear":[116],"mapping":[117],"technique":[118],"normalize":[120],"high":[121],"dynamic":[122],"range":[123],"unevenly":[125],"distributed":[126],"data":[127],"before":[128],"applying":[129],"algorithm.":[133],"We":[134],"validate":[135],"our":[136,154,176,192],"method":[137],"on":[138,170],"diverse":[139],"datasets,":[140],"demonstrating":[141],"substantial":[142],"improvements":[143],"peak":[145],"signal-to-noise":[146],"ratio":[147],"(PSNR)":[148],"compared":[149],"existing":[151],"algorithms.":[152],"Moreover,":[153],"algorithm":[155,193],"exhibits":[156],"robust":[157],"performance":[158],"when":[159],"applied":[160],"real":[162],"LSFM":[163,196],"Through":[165],"extensive":[166],"validation":[167],"experiments,":[168],"both":[169],"test":[171],"sets":[172],"real-world":[174],"data,":[175],"outperforms":[178],"traditional":[179],"methods,":[180],"affirming":[181],"effectiveness":[183],"enhancing":[185],"quality.":[187],"Furthermore,":[188],"adaptability":[190],"extends":[194],"beyond":[195],"applications":[197],"encompass":[199],"other":[200],"imaging":[201],"modalities.":[202],"versatility":[204],"underscores":[205],"potential":[207],"enhance":[209],"usability":[211],"various":[213],"research":[214],"disciplines.":[215]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-06-13T06:13:01.061226","created_date":"2025-10-10T00:00:00"}
