{"id":"https://openalex.org/W2138114100","doi":"https://doi.org/10.1109/isbi.2004.1398764","title":"Neurite tracing in fluorescence microscopy images using ridge filtering and graph searching: principles and validation","display_name":"Neurite tracing in fluorescence microscopy images using ridge filtering and graph searching: principles and validation","publication_year":2005,"publication_date":"2005-04-06","ids":{"openalex":"https://openalex.org/W2138114100","doi":"https://doi.org/10.1109/isbi.2004.1398764","mag":"2138114100"},"language":"en","primary_location":{"id":"doi:10.1109/isbi.2004.1398764","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2004.1398764","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano (IEEE Cat No. 04EX821)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://infoscience.epfl.ch/record/211345","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023548565","display_name":"Erik Meijering","orcid":"https://orcid.org/0000-0001-8015-8358"},"institutions":[{"id":"https://openalex.org/I2801952686","display_name":"Erasmus MC","ror":"https://ror.org/018906e22","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2801952686"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"E. Meijering","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments. of Medical Informatics and Radiology, Erasmus MC-University Medical Center Rotterdam, Rotterdam, Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments. of Medical Informatics and Radiology, Erasmus MC-University Medical Center Rotterdam, Rotterdam, Netherlands","institution_ids":["https://openalex.org/I2801952686"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072299998","display_name":"Mathews Jacob","orcid":"https://orcid.org/0000-0001-6196-3933"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"M. Jacob","raw_affiliation_strings":["Biomedical Imaging Group, EPFL-STI-BIOE-LIB, BM-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group, EPFL-STI-BIOE-LIB, BM-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031211159","display_name":"J.\u2010C. Floyd Sarria","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"J.-C.F. Sarria","raw_affiliation_strings":["Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047917594","display_name":"Pascal Steiner","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"P. Steiner","raw_affiliation_strings":["Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019458378","display_name":"Harald Hirling","orcid":"https://orcid.org/0000-0003-2070-100X"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"H. Hirling","raw_affiliation_strings":["Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Laboratory of Cellular Neurobiology, EPFL-SV-INS-LNC, AI-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027830035","display_name":"Micha\u00ebl Unser","orcid":"https://orcid.org/0000-0003-1248-2513"},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"M. Unser","raw_affiliation_strings":["Biomedical Imaging Group, EPFL-STI-BIOE-LIB, BM-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group, EPFL-STI-BIOE-LIB, BM-Ecublens, Swiss Federal Institute of Technology, Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5023548565"],"corresponding_institution_ids":["https://openalex.org/I2801952686"],"apc_list":null,"apc_paid":null,"fwci":1.2114,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":{"value":0.85238156,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"2","issue":null,"first_page":"1219","last_page":"1222"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998999834060669,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9936000108718872,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9912999868392944,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/neurite","display_name":"Neurite","score":0.8536095023155212},{"id":"https://openalex.org/keywords/tracing","display_name":"Tracing","score":0.7665674686431885},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6878941655158997},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.5903832912445068},{"id":"https://openalex.org/keywords/microscopy","display_name":"Microscopy","score":0.5705706477165222},{"id":"https://openalex.org/keywords/reproducibility","display_name":"Reproducibility","score":0.5489575862884521},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5362322926521301},{"id":"https://openalex.org/keywords/fluorescence-microscope","display_name":"Fluorescence microscope","score":0.5072360038757324},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5028867125511169},{"id":"https://openalex.org/keywords/ridge","display_name":"Ridge","score":0.483464777469635},{"id":"https://openalex.org/keywords/filter","display_name":"Filter (signal processing)","score":0.4379134178161621},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.40836063027381897},{"id":"https://openalex.org/keywords/biomedical-engineering","display_name":"Biomedical engineering","score":0.3704175353050232},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3588992655277252},{"id":"https://openalex.org/keywords/fluorescence","display_name":"Fluorescence","score":0.34022805094718933},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.22135397791862488},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.16073670983314514},{"id":"https://openalex.org/keywords/geology","display_name":"Geology","score":0.12126860022544861},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.1100287139415741},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.09068825840950012},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08513230085372925}],"concepts":[{"id":"https://openalex.org/C113246987","wikidata":"https://www.wikidata.org/wiki/Q1534415","display_name":"Neurite","level":3,"score":0.8536095023155212},{"id":"https://openalex.org/C138673069","wikidata":"https://www.wikidata.org/wiki/Q322229","display_name":"Tracing","level":2,"score":0.7665674686431885},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6878941655158997},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.5903832912445068},{"id":"https://openalex.org/C147080431","wikidata":"https://www.wikidata.org/wiki/Q1074953","display_name":"Microscopy","level":2,"score":0.5705706477165222},{"id":"https://openalex.org/C9893847","wikidata":"https://www.wikidata.org/wiki/Q1425625","display_name":"Reproducibility","level":2,"score":0.5489575862884521},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5362322926521301},{"id":"https://openalex.org/C169274487","wikidata":"https://www.wikidata.org/wiki/Q840211","display_name":"Fluorescence microscope","level":3,"score":0.5072360038757324},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5028867125511169},{"id":"https://openalex.org/C32277403","wikidata":"https://www.wikidata.org/wiki/Q740445","display_name":"Ridge","level":2,"score":0.483464777469635},{"id":"https://openalex.org/C106131492","wikidata":"https://www.wikidata.org/wiki/Q3072260","display_name":"Filter (signal processing)","level":2,"score":0.4379134178161621},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.40836063027381897},{"id":"https://openalex.org/C136229726","wikidata":"https://www.wikidata.org/wiki/Q327092","display_name":"Biomedical engineering","level":1,"score":0.3704175353050232},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3588992655277252},{"id":"https://openalex.org/C91881484","wikidata":"https://www.wikidata.org/wiki/Q191807","display_name":"Fluorescence","level":2,"score":0.34022805094718933},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.22135397791862488},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.16073670983314514},{"id":"https://openalex.org/C127313418","wikidata":"https://www.wikidata.org/wiki/Q1069","display_name":"Geology","level":0,"score":0.12126860022544861},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1100287139415741},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.09068825840950012},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08513230085372925},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C202751555","wikidata":"https://www.wikidata.org/wiki/Q221681","display_name":"In vitro","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/isbi.2004.1398764","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2004.1398764","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano (IEEE Cat No. 04EX821)","raw_type":"proceedings-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.332.8186","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.332.8186","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.imagescience.org/meijering/publications/download/isbi2004.pdf","raw_type":"text"},{"id":"pmh:oai:infoscience.epfl.ch:211345","is_oa":true,"landing_page_url":"http://infoscience.epfl.ch/record/211345","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"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":"","raw_type":"Text"},{"id":"pmh:oai:infoscience.tind.io:211345","is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/handle/20.500.14299/118091","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"conference proceedings"}],"best_oa_location":{"id":"pmh:oai:infoscience.epfl.ch:211345","is_oa":true,"landing_page_url":"http://infoscience.epfl.ch/record/211345","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"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":"","raw_type":"Text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1987983010","https://openalex.org/W1995063668","https://openalex.org/W2037621645","https://openalex.org/W2068800578","https://openalex.org/W2075942647","https://openalex.org/W2083116072","https://openalex.org/W2096320880","https://openalex.org/W2100961570","https://openalex.org/W2101632303","https://openalex.org/W2111983243","https://openalex.org/W2134133984","https://openalex.org/W2159619845"],"related_works":["https://openalex.org/W2413717610","https://openalex.org/W2043182207","https://openalex.org/W2366233132","https://openalex.org/W2001779036","https://openalex.org/W1973270181","https://openalex.org/W2417696084","https://openalex.org/W1460773300","https://openalex.org/W2368782778","https://openalex.org/W2766738238","https://openalex.org/W4211170404"],"abstract_inverted_index":{"To":[0,68],"assist":[1],"neurobiologists":[2],"investigating":[3],"the":[4,20,70,73,78,106],"molecular":[5],"mechanisms":[6],"involved":[7],"in":[8,91,97,112,119],"neurite":[9,114,120],"formation":[10],"and":[11,22,42,126],"differentiation,":[12],"we":[13],"have":[14],"developed":[15],"an":[16,33],"interactive":[17],"technique":[18,29,74,108],"for":[19,37],"tracing":[21],"quantification":[23],"of":[24,72,77,82,95],"elongated":[25],"image":[26,57],"structures.":[27],"The":[28,102],"is":[30],"based":[31],"on":[32],"improved":[34,117,124],"steerable":[35],"filter":[36],"computing":[38],"local":[39],"ridge":[40],"strength":[41],"orientation.":[43],"It":[44],"also":[45],"uses":[46],"a":[47,51],"graph-searching":[48],"algorithm":[49],"with":[50],"novel":[52],"cost":[53],"function":[54],"exploiting":[55],"these":[56],"features":[58],"to":[59,75],"obtain":[60],"globally":[61],"optimal":[62],"tracings":[63],"between":[64],"user-defined":[65],"control":[66],"points.":[67],"compare":[69],"performance":[71],"that":[76,105],"currently":[79],"used":[80],"approach":[81],"fully":[83],"manual":[84],"delineation,":[85],"four":[86],"observers":[87],"traced":[88],"selected":[89],"neurites":[90],"fluorescence":[92],"microscopy":[93],"images":[94],"cells":[96],"culture,":[98],"using":[99],"both":[100],"methods.":[101],"results":[103],"indicated":[104],"proposed":[107],"yields":[109],"comparable":[110],"accuracy":[111,118],"measuring":[113],"length,":[115],"significantly":[116,123],"centerline":[121],"extraction,":[122],"reproducibility":[125],"reduced":[127],"user":[128],"interaction.":[129]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
