{"id":"https://openalex.org/W4395069500","doi":"https://doi.org/10.1109/tip.2024.3387297","title":"Model-Based Explainable Deep Learning for Light-Field Microscopy Imaging","display_name":"Model-Based Explainable Deep Learning for Light-Field Microscopy Imaging","publication_year":2024,"publication_date":"2024-01-01","ids":{"openalex":"https://openalex.org/W4395069500","doi":"https://doi.org/10.1109/tip.2024.3387297","pmid":"https://pubmed.ncbi.nlm.nih.gov/38656840"},"language":"en","primary_location":{"id":"doi:10.1109/tip.2024.3387297","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tip.2024.3387297","pdf_url":null,"source":{"id":"https://openalex.org/S4210173141","display_name":"IEEE Transactions on Image Processing","issn_l":"1057-7149","issn":["1057-7149","1941-0042"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Image Processing","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11100862/pdf/tip-song-3387297.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5086311488","display_name":"Pingfan Song","orcid":"https://orcid.org/0000-0003-3596-083X"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Pingfan Song","raw_affiliation_strings":["Department of Engineering, University of Cambridge, Cambridge, U.K"],"raw_orcid":"https://orcid.org/0000-0003-3596-083X","affiliations":[{"raw_affiliation_string":"Department of Engineering, University of Cambridge, Cambridge, U.K","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086335035","display_name":"Herman Verinaz-Jadan","orcid":"https://orcid.org/0000-0003-1391-3426"},"institutions":[{"id":"https://openalex.org/I2135383","display_name":"Escuela Superior Politecnica del Litoral","ror":"https://ror.org/04qenc566","country_code":"EC","type":"education","lineage":["https://openalex.org/I2135383"]}],"countries":["EC"],"is_corresponding":false,"raw_author_name":"Herman Verinaz Jadan","raw_affiliation_strings":["Faculty of Electrical and Computer Engineering, Escuela Superior Polit&#x00E9;cnica del Litoral (ESPOL), Guayaquil, Ecuador"],"raw_orcid":"https://orcid.org/0000-0003-1391-3426","affiliations":[{"raw_affiliation_string":"Faculty of Electrical and Computer Engineering, Escuela Superior Polit&#x00E9;cnica del Litoral (ESPOL), Guayaquil, Ecuador","institution_ids":["https://openalex.org/I2135383"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055758388","display_name":"Carmel L. Howe","orcid":"https://orcid.org/0000-0002-5827-8705"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Carmel L. Howe","raw_affiliation_strings":["Department of Chemical Physiology and Biochemistry, Oregon Health and Science University, Portland, OR, USA"],"raw_orcid":"https://orcid.org/0000-0002-5827-8705","affiliations":[{"raw_affiliation_string":"Department of Chemical Physiology and Biochemistry, Oregon Health and Science University, Portland, OR, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042375232","display_name":"Amanda J. Foust","orcid":"https://orcid.org/0000-0002-4895-0502"},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Amanda J. Foust","raw_affiliation_strings":["Department of Bioengineering, Center for Neurotechnology, Imperial College London, London, U.K"],"raw_orcid":"https://orcid.org/0000-0002-4895-0502","affiliations":[{"raw_affiliation_string":"Department of Bioengineering, Center for Neurotechnology, Imperial College London, London, U.K","institution_ids":["https://openalex.org/I47508984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053203917","display_name":"Pier Luigi Dragotti","orcid":"https://orcid.org/0000-0002-6073-2807"},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Pier Luigi Dragotti","raw_affiliation_strings":["Department of Electronic and Electrical Engineering, Imperial College London, London, UK"],"raw_orcid":"https://orcid.org/0000-0002-6073-2807","affiliations":[{"raw_affiliation_string":"Department of Electronic and Electrical Engineering, Imperial College London, London, UK","institution_ids":["https://openalex.org/I47508984"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.9098,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.90559882,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"33","issue":null,"first_page":"3059","last_page":"3074"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9995999932289124,"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":0.9995999932289124,"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/T11569","display_name":"Optical Coherence Tomography Applications","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9972000122070312,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/interpretability","display_name":"Interpretability","score":0.8979268074035645},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.737517237663269},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.700442373752594},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.6341398358345032},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5844939947128296},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5468270182609558}],"concepts":[{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.8979268074035645},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.737517237663269},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.700442373752594},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.6341398358345032},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5844939947128296},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5468270182609558}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/tip.2024.3387297","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tip.2024.3387297","pdf_url":null,"source":{"id":"https://openalex.org/S4210173141","display_name":"IEEE Transactions on Image Processing","issn_l":"1057-7149","issn":["1057-7149","1941-0042"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Image Processing","raw_type":"journal-article"},{"id":"pmid:38656840","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38656840","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":"IEEE transactions on image processing : a publication of the IEEE Signal Processing Society","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11100862","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11100862","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11100862/pdf/tip-song-3387297.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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Trans Image Process","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:11100862","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11100862","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11100862/pdf/tip-song-3387297.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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Trans Image Process","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1186037498","display_name":null,"funder_award_id":"201964/Z/16/Z","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G2327564139","display_name":"EPSRC Centre for Doctoral Training in Neurotechnology for Life and Health","funder_award_id":"EP/L016737/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G3168463135","display_name":"Two-photon Light Field with Neuro-active Sensing for Fast Volumetric Neural Microcircuit Readout","funder_award_id":"BB/R009007/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4485320506","display_name":null,"funder_award_id":"RF1415/14/26","funder_id":"https://openalex.org/F4320320005","funder_display_name":"Royal Academy of Engineering"},{"id":"https://openalex.org/G8017067339","display_name":null,"funder_award_id":"BB/R009007/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320320005","display_name":"Royal Academy of Engineering","ror":"https://ror.org/0526snb40"},{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4395069500.pdf","grobid_xml":"https://content.openalex.org/works/W4395069500.grobid-xml"},"referenced_works_count":76,"referenced_works":["https://openalex.org/W1624194054","https://openalex.org/W1778307852","https://openalex.org/W1821462560","https://openalex.org/W1976804944","https://openalex.org/W1986142635","https://openalex.org/W1989334124","https://openalex.org/W1994574914","https://openalex.org/W2050054249","https://openalex.org/W2060167709","https://openalex.org/W2063094145","https://openalex.org/W2063383897","https://openalex.org/W2064586097","https://openalex.org/W2098997175","https://openalex.org/W2100556411","https://openalex.org/W2161568005","https://openalex.org/W2168845926","https://openalex.org/W2179838071","https://openalex.org/W2194418093","https://openalex.org/W2194775991","https://openalex.org/W2214409633","https://openalex.org/W2257183329","https://openalex.org/W2294985758","https://openalex.org/W2386621445","https://openalex.org/W2661720377","https://openalex.org/W2754636875","https://openalex.org/W2802576439","https://openalex.org/W2802834681","https://openalex.org/W2898972076","https://openalex.org/W2904178747","https://openalex.org/W2910573932","https://openalex.org/W2915409612","https://openalex.org/W2950775992","https://openalex.org/W2963140444","https://openalex.org/W2966800242","https://openalex.org/W2971338878","https://openalex.org/W2981006361","https://openalex.org/W2989882321","https://openalex.org/W2998785217","https://openalex.org/W3014859219","https://openalex.org/W3015700660","https://openalex.org/W3033744565","https://openalex.org/W3034368386","https://openalex.org/W3048359925","https://openalex.org/W3101842671","https://openalex.org/W3107608927","https://openalex.org/W3126189420","https://openalex.org/W3133902371","https://openalex.org/W3138154797","https://openalex.org/W3158688284","https://openalex.org/W3160844436","https://openalex.org/W3162795165","https://openalex.org/W3164199371","https://openalex.org/W3176135617","https://openalex.org/W3180322328","https://openalex.org/W4213459035","https://openalex.org/W4220708596","https://openalex.org/W4221137786","https://openalex.org/W4224307657","https://openalex.org/W4225583299","https://openalex.org/W4225890642","https://openalex.org/W4226458325","https://openalex.org/W4238427472","https://openalex.org/W4254014794","https://openalex.org/W4289593538","https://openalex.org/W4297775537","https://openalex.org/W4307716783","https://openalex.org/W4310633896","https://openalex.org/W4323650889","https://openalex.org/W4378976255","https://openalex.org/W4383956887","https://openalex.org/W4400057104","https://openalex.org/W6737664043","https://openalex.org/W6754103055","https://openalex.org/W6798202833","https://openalex.org/W6850842500","https://openalex.org/W6857055925"],"related_works":["https://openalex.org/W1986582023","https://openalex.org/W2731899572","https://openalex.org/W2961085424","https://openalex.org/W2966829450","https://openalex.org/W3215138031","https://openalex.org/W4306674287","https://openalex.org/W4321369474","https://openalex.org/W3009238340","https://openalex.org/W4360585206","https://openalex.org/W4285208911"],"abstract_inverted_index":{"In":[0,109],"modern":[1],"neuroscience,":[2],"observing":[3],"the":[4,50,93,105,111,114,127,152,166,199,202],"dynamics":[5],"of":[6,9,15,19,31,52,113,157,168,201,211],"large":[7],"populations":[8],"neurons":[10,20],"is":[11,118],"a":[12,29,80,133,137],"critical":[13],"step":[14],"understanding":[16],"how":[17],"networks":[18],"process":[21],"information.":[22],"Light-field":[23],"microscopy":[24],"(LFM)":[25],"has":[26],"emerged":[27],"as":[28,67,69],"type":[30],"scanless,":[32],"high-speed,":[33],"three-dimensional":[34],"(3D)":[35],"imaging":[36],"tool,":[37],"particularly":[38],"attractive":[39],"for":[40,49,86],"this":[41,76],"purpose.":[42],"Imaging":[43],"neuronal":[44],"activity":[45,217],"using":[46,136],"LFM":[47,189],"calls":[48],"development":[51],"novel":[53,138],"computational":[54],"approaches":[55],"that":[56,141],"fully":[57],"exploit":[58],"domain":[59,158],"knowledge":[60,147,159],"embedded":[61],"in":[62],"physics":[63],"and":[64,73,101,123,160,171,180,187,214],"optics":[65],"models,":[66],"well":[68],"enabling":[70],"high":[71],"interpretability":[72],"transparency.":[74],"To":[75],"end,":[77],"we":[78,197],"propose":[79],"model-based":[81,170],"explainable":[82],"deep":[83],"learning":[84],"approach":[85,95,204],"LFM.":[87],"Different":[88],"from":[89,132,192],"purely":[90],"data-driven":[91],"methods,":[92,173],"proposed":[94,115,203],"integrates":[96,142],"wave-optics":[97],"theory,":[98],"sparse":[99],"representation":[100],"non-linear":[102],"optimization":[103,124],"with":[104,145],"artificial":[106],"neural":[107,116,216],"network.":[108],"particular,":[110],"architecture":[112],"network":[117,153],"designed":[119],"following":[120],"precise":[121],"signal":[122],"models.":[125],"Moreover,":[126],"network's":[128],"parameters":[129],"are":[130],"learned":[131,161],"training":[134,139,144],"dataset":[135],"strategy":[140],"layer-wise":[143],"tailored":[146],"distillation.":[148],"Such":[149],"design":[150],"allows":[151],"to":[154,176,205],"take":[155],"advantage":[156],"new":[162],"features.":[163],"It":[164],"combines":[165],"benefit":[167],"both":[169,185],"learning-based":[172],"thereby":[174],"contributing":[175],"superior":[177],"interpretability,":[178],"transparency":[179],"performance.":[181],"By":[182],"evaluating":[183],"on":[184],"structural":[186],"functional":[188],"data":[190],"obtained":[191],"scattering":[193],"mammalian":[194],"brain":[195],"tissues,":[196],"demonstrate":[198],"capabilities":[200],"achieve":[206],"fast,":[207],"robust":[208],"3D":[209],"localization":[210],"neuron":[212],"sources":[213],"accurate":[215],"identification.":[218]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
