{"id":"https://openalex.org/W4396667255","doi":"https://doi.org/10.1371/journal.pcbi.1012053","title":"Removing direct photocurrent artifacts in optogenetic connectivity mapping data via constrained matrix factorization","display_name":"Removing direct photocurrent artifacts in optogenetic connectivity mapping data via constrained matrix factorization","publication_year":2024,"publication_date":"2024-05-06","ids":{"openalex":"https://openalex.org/W4396667255","doi":"https://doi.org/10.1371/journal.pcbi.1012053","pmid":"https://pubmed.ncbi.nlm.nih.gov/38709828"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1012053","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012053","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1012053&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1012053&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5039653889","display_name":"Benjamin Antin","orcid":"https://orcid.org/0000-0002-3361-985X"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Benjamin Antin","raw_affiliation_strings":["Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-3361-985X","affiliations":[{"raw_affiliation_string":"Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003666844","display_name":"Masato Sadahiro","orcid":"https://orcid.org/0000-0003-4164-565X"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Masato Sadahiro","raw_affiliation_strings":["Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040947320","display_name":"Marta Gajowa","orcid":"https://orcid.org/0000-0002-6399-6883"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Marta Gajowa","raw_affiliation_strings":["Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054501530","display_name":"Marcus A. Triplett","orcid":"https://orcid.org/0000-0003-1805-0180"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Marcus A. Triplett","raw_affiliation_strings":["Department of Statistics, Columbia University, New York, New York, United States of America","Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Columbia University, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004367419","display_name":"Hillel Adesnik","orcid":"https://orcid.org/0000-0002-3796-8643"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hillel Adesnik","raw_affiliation_strings":["Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023278055","display_name":"Liam Paninski","orcid":"https://orcid.org/0000-0002-0276-7032"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Liam Paninski","raw_affiliation_strings":["Department of Statistics, Columbia University, New York, New York, United States of America","Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Columbia University, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Mortimer B. Zuckerman Mind Brain Behavior Institute, Grossman Center for the Statistics of Mind, and Center for Theoretical Neuroscience, Columbia University, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5003666844","https://openalex.org/A5004367419","https://openalex.org/A5023278055","https://openalex.org/A5039653889","https://openalex.org/A5040947320","https://openalex.org/A5054501530"],"corresponding_institution_ids":["https://openalex.org/I78577930","https://openalex.org/I95457486"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.2188,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.76464482,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"20","issue":"5","first_page":"e1012053","last_page":"e1012053"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12236","display_name":"Photoreceptor and optogenetics research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12236","display_name":"Photoreceptor and optogenetics research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10581","display_name":"Neural dynamics and brain function","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10502","display_name":"Advanced Memory and Neural Computing","score":0.9977999925613403,"subfield":{"id":"https://openalex.org/subfields/2208","display_name":"Electrical and Electronic Engineering"},"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/photocurrent","display_name":"Photocurrent","score":0.7830694913864136},{"id":"https://openalex.org/keywords/optogenetics","display_name":"Optogenetics","score":0.7431731224060059},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6181604862213135},{"id":"https://openalex.org/keywords/postsynaptic-potential","display_name":"Postsynaptic potential","score":0.5548748970031738},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.4901941418647766},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.44833239912986755},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.31697848439216614},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2532954514026642},{"id":"https://openalex.org/keywords/optoelectronics","display_name":"Optoelectronics","score":0.2185913324356079},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21852260828018188}],"concepts":[{"id":"https://openalex.org/C2779845233","wikidata":"https://www.wikidata.org/wiki/Q3381567","display_name":"Photocurrent","level":2,"score":0.7830694913864136},{"id":"https://openalex.org/C50738837","wikidata":"https://www.wikidata.org/wiki/Q781492","display_name":"Optogenetics","level":2,"score":0.7431731224060059},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6181604862213135},{"id":"https://openalex.org/C197341189","wikidata":"https://www.wikidata.org/wiki/Q863533","display_name":"Postsynaptic potential","level":3,"score":0.5548748970031738},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.4901941418647766},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.44833239912986755},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.31697848439216614},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2532954514026642},{"id":"https://openalex.org/C49040817","wikidata":"https://www.wikidata.org/wiki/Q193091","display_name":"Optoelectronics","level":1,"score":0.2185913324356079},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21852260828018188},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008959","descriptor_name":"Models, Neurological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"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":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D013569","descriptor_name":"Synapses","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018408","descriptor_name":"Patch-Clamp Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D062308","descriptor_name":"Optogenetics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1012053","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012053","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1012053&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:38709828","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38709828","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt6r31s15k","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/6r31s15k","pdf_url":"https://escholarship.org/content/qt6r31s15k/qt6r31s15k.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"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":"PLOS Computational Biology, vol 20, iss 5","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11098512","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11098512","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11098512/pdf/pcbi.1012053.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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:RePEc:plo:pcbi00:1012053","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012053","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:f8381761c0c84a7e9d48903585032de6","is_oa":true,"landing_page_url":"https://doaj.org/article/f8381761c0c84a7e9d48903585032de6","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 20, Iss 5, p e1012053 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1012053","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012053","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1012053&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.46000000834465027}],"awards":[{"id":"https://openalex.org/G380079918","display_name":null,"funder_award_id":"1U19NS107613","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4253858762","display_name":null,"funder_award_id":"1707398","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4583478698","display_name":null,"funder_award_id":"1RF1MH120680","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4933819628","display_name":null,"funder_award_id":"1U19NS107613-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6605009349","display_name":null,"funder_award_id":"1707398","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320033","display_name":"Gatsby Charitable Foundation","ror":"https://ror.org/0290hax27"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4396667255.pdf"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W2015520158","https://openalex.org/W2016511206","https://openalex.org/W2041601616","https://openalex.org/W2101918431","https://openalex.org/W2102536337","https://openalex.org/W2117008427","https://openalex.org/W2147249695","https://openalex.org/W2164278908","https://openalex.org/W2186584449","https://openalex.org/W2324276694","https://openalex.org/W2400483279","https://openalex.org/W2467288641","https://openalex.org/W2508363096","https://openalex.org/W2550592212","https://openalex.org/W2595012769","https://openalex.org/W2612690371","https://openalex.org/W2767513918","https://openalex.org/W2802334093","https://openalex.org/W2892328437","https://openalex.org/W2949350296","https://openalex.org/W2950157071","https://openalex.org/W2953091345","https://openalex.org/W2963369852","https://openalex.org/W3106163355","https://openalex.org/W3112025251","https://openalex.org/W3167555276","https://openalex.org/W3213898303","https://openalex.org/W4206836245","https://openalex.org/W4221019405","https://openalex.org/W4223480446","https://openalex.org/W4225410818","https://openalex.org/W4225898070","https://openalex.org/W4244786951","https://openalex.org/W4287704926","https://openalex.org/W4292363360","https://openalex.org/W4296149771","https://openalex.org/W4360951772","https://openalex.org/W4378188284"],"related_works":["https://openalex.org/W2802231275","https://openalex.org/W1987269193","https://openalex.org/W642420035","https://openalex.org/W3096957045","https://openalex.org/W4206477879","https://openalex.org/W2913368251","https://openalex.org/W2435758087","https://openalex.org/W2271615357","https://openalex.org/W87499999","https://openalex.org/W4206570293"],"abstract_inverted_index":{"Monosynaptic":[0],"connectivity":[1,90],"mapping":[2,22],"is":[3,110,191],"crucial":[4],"for":[5,91],"building":[6],"circuit-level":[7],"models":[8],"of":[9,23,42,66,130,161,181],"neural":[10],"computation.":[11],"Two-photon":[12],"optogenetic":[13],"stimulation,":[14],"when":[15,58],"combined":[16],"with":[17,105],"whole-cell":[18],"recording,":[19],"enables":[20],"large-scale":[21],"physiological":[24],"circuit":[25],"parameters.":[26],"In":[27],"this":[28,96],"experimental":[29],"setup,":[30],"recorded":[31],"postsynaptic":[32,60,75],"currents":[33],"are":[34,50,125],"used":[35],"to":[36,54,88],"infer":[37],"the":[38,59,74,120,159],"presence":[39],"and":[40,137,173,190],"strength":[41],"connections.":[43],"For":[44],"many":[45],"cell":[46,61],"types,":[47],"nearby":[48,67,92],"connections":[49,163],"those":[51,129],"we":[52,98],"expect":[53],"be":[55],"strongest.":[56],"However,":[57],"expresses":[62],"opsin,":[63],"optical":[64],"excitation":[65],"cells":[68],"can":[69],"induce":[70],"direct":[71],"photocurrents":[72,144],"in":[73,151],"cell.":[76],"These":[77],"photocurrent":[78,123,152,171],"artifacts":[79],"contaminate":[80],"synaptic":[81,131,147,162,182],"currents,":[82,148],"making":[83],"it":[84],"difficult":[85],"or":[86],"impossible":[87],"probe":[89],"cells.":[93],"To":[94],"overcome":[95],"problem,":[97],"developed":[99],"a":[100,113,177],"computational":[101],"tool,":[102],"Photocurrent":[103],"Removal":[104],"Constraints":[106],"(PhoRC).":[107],"Our":[108,156],"method":[109,157],"based":[111],"on":[112,135],"constrained":[114],"matrix":[115],"factorization":[116],"model":[117],"which":[118,164],"leverages":[119],"fact":[121],"that":[122,140],"kinetics":[124,153],"less":[126],"variable":[127],"than":[128,187],"currents.":[132],"We":[133],"demonstrate":[134],"real":[136,188],"simulated":[138],"data":[139],"PhoRC":[141,184],"consistently":[142],"removes":[143],"while":[145],"preserving":[146],"despite":[149],"variations":[150],"across":[154],"datasets.":[155],"allows":[158],"discovery":[160],"would":[165],"have":[166],"been":[167],"otherwise":[168],"obscured":[169],"by":[170],"artifacts,":[172],"may":[174],"thus":[175],"reveal":[176],"more":[178],"complete":[179],"picture":[180],"connectivity.":[183],"runs":[185],"faster":[186],"time":[189],"available":[192],"as":[193],"open":[194],"source":[195],"software.":[196]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4}],"updated_date":"2026-05-24T08:33:08.758527","created_date":"2025-10-10T00:00:00"}