{"id":"https://openalex.org/W2014252132","doi":"https://doi.org/10.1109/tip.2014.2378052","title":"Tubularity Flow Field\u2014A Technique for Automatic Neuron Segmentation","display_name":"Tubularity Flow Field\u2014A Technique for Automatic Neuron Segmentation","publication_year":2014,"publication_date":"2014-12-04","ids":{"openalex":"https://openalex.org/W2014252132","doi":"https://doi.org/10.1109/tip.2014.2378052","mag":"2014252132","pmid":"https://pubmed.ncbi.nlm.nih.gov/25494506"},"language":"en","primary_location":{"id":"doi:10.1109/tip.2014.2378052","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tip.2014.2378052","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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076283372","display_name":"Suvadip Mukherjee","orcid":"https://orcid.org/0000-0002-2842-6527"},"institutions":[{"id":"https://openalex.org/I51556381","display_name":"University of Virginia","ror":"https://ror.org/0153tk833","country_code":"US","type":"education","lineage":["https://openalex.org/I51556381"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Suvadip Mukherjee","raw_affiliation_strings":["Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA, USA","Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA , USA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA, USA","institution_ids":["https://openalex.org/I51556381"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA , USA#TAB#","institution_ids":["https://openalex.org/I51556381"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014145070","display_name":"Barry Condron","orcid":"https://orcid.org/0000-0003-2610-5065"},"institutions":[{"id":"https://openalex.org/I51556381","display_name":"University of Virginia","ror":"https://ror.org/0153tk833","country_code":"US","type":"education","lineage":["https://openalex.org/I51556381"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barry Condron","raw_affiliation_strings":["Department of Biology, University of Virginia, Charlottesville, VA, USA","Department of Biology; University of Virginia; Charlottesville, VA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Virginia, Charlottesville, VA, USA","institution_ids":["https://openalex.org/I51556381"]},{"raw_affiliation_string":"Department of Biology; University of Virginia; Charlottesville, VA USA","institution_ids":["https://openalex.org/I51556381"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034452294","display_name":"Scott T. Acton","orcid":"https://orcid.org/0000-0003-3288-1255"},"institutions":[{"id":"https://openalex.org/I51556381","display_name":"University of Virginia","ror":"https://ror.org/0153tk833","country_code":"US","type":"education","lineage":["https://openalex.org/I51556381"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott T. Acton","raw_affiliation_strings":["Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA, USA","Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA , USA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA, USA","institution_ids":["https://openalex.org/I51556381"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Virginia, Charlottesville, VA , USA#TAB#","institution_ids":["https://openalex.org/I51556381"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":5.7986,"has_fulltext":false,"cited_by_count":59,"citation_normalized_percentile":{"value":0.95419797,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"24","issue":"1","first_page":"374","last_page":"389"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9998000264167786,"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":0.9998000264167786,"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/T10379","display_name":"Cellular Mechanics and Interactions","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9983000159263611,"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/segmentation","display_name":"Segmentation","score":0.7658191919326782},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.7092803716659546},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6878935694694519},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.657672643661499},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.6203797459602356},{"id":"https://openalex.org/keywords/scale-space-segmentation","display_name":"Scale-space segmentation","score":0.5066086053848267},{"id":"https://openalex.org/keywords/confocal","display_name":"Confocal","score":0.4344111680984497},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4340021014213562},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.12797027826309204},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.1276804506778717}],"concepts":[{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.7658191919326782},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7092803716659546},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6878935694694519},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.657672643661499},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.6203797459602356},{"id":"https://openalex.org/C65885262","wikidata":"https://www.wikidata.org/wiki/Q7429708","display_name":"Scale-space segmentation","level":4,"score":0.5066086053848267},{"id":"https://openalex.org/C136009344","wikidata":"https://www.wikidata.org/wiki/Q336201","display_name":"Confocal","level":2,"score":0.4344111680984497},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4340021014213562},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.12797027826309204},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1276804506778717}],"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":"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":"D004330","descriptor_name":"Drosophila","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":"Q000033","qualifier_name":"anatomy & histology","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":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D009474","descriptor_name":"Neurons","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018613","descriptor_name":"Microscopy, Confocal","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018613","descriptor_name":"Microscopy, Confocal","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018613","descriptor_name":"Microscopy, Confocal","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tip.2014.2378052","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tip.2014.2378052","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:25494506","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25494506","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}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G64767720","display_name":null,"funder_award_id":"1062433","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W1488737327","https://openalex.org/W1492321197","https://openalex.org/W1565430493","https://openalex.org/W1964869106","https://openalex.org/W1973195069","https://openalex.org/W1979088361","https://openalex.org/W1983383587","https://openalex.org/W1991113069","https://openalex.org/W1992621211","https://openalex.org/W1998275104","https://openalex.org/W2001658278","https://openalex.org/W2018227909","https://openalex.org/W2033813088","https://openalex.org/W2036901575","https://openalex.org/W2039929154","https://openalex.org/W2045264393","https://openalex.org/W2061186544","https://openalex.org/W2065350495","https://openalex.org/W2075806490","https://openalex.org/W2079986451","https://openalex.org/W2098158945","https://openalex.org/W2102186815","https://openalex.org/W2104095591","https://openalex.org/W2116018917","https://openalex.org/W2116040950","https://openalex.org/W2123969709","https://openalex.org/W2124135702","https://openalex.org/W2127091269","https://openalex.org/W2128089874","https://openalex.org/W2129390138","https://openalex.org/W2129534965","https://openalex.org/W2132363464","https://openalex.org/W2133059825","https://openalex.org/W2139478903","https://openalex.org/W2139936493","https://openalex.org/W2142722911","https://openalex.org/W2142958591","https://openalex.org/W2145803225","https://openalex.org/W2149184914","https://openalex.org/W2152235301","https://openalex.org/W2153965609","https://openalex.org/W2155343350","https://openalex.org/W2156114286","https://openalex.org/W2168005337","https://openalex.org/W2169528473","https://openalex.org/W2171234607","https://openalex.org/W2505738181","https://openalex.org/W3211330693","https://openalex.org/W6679020471","https://openalex.org/W6679367408","https://openalex.org/W6680096826"],"related_works":["https://openalex.org/W2185902295","https://openalex.org/W2103507220","https://openalex.org/W3144569342","https://openalex.org/W3011384228","https://openalex.org/W4313052709","https://openalex.org/W2945274617","https://openalex.org/W3199300986","https://openalex.org/W4298131179","https://openalex.org/W2375430703","https://openalex.org/W1522196789"],"abstract_inverted_index":{"A":[0],"segmentation":[1,29,35,119,164],"framework":[2,114],"is":[3,75,94,120,128,134],"proposed":[4],"to":[5,27,77],"trace":[6],"neurons":[7],"from":[8],"confocal":[9,65,143],"microscopy":[10,66,144],"images.":[11],"With":[12],"an":[13,24,97,149],"increasing":[14],"demand":[15],"for":[16],"high":[17],"throughput":[18],"neuronal":[19],"image":[20,192],"analysis,":[21],"we":[22,147],"propose":[23],"automated":[25],"scheme":[26],"perform":[28],"in":[30,64,86,96,111,153,188],"a":[31,69,112,137,189],"variational":[32,171],"framework.":[33],"Our":[34],"technique,":[36],"called":[37],"tubularity":[38,51],"flow":[39],"field":[40],"(TuFF)":[41],"performs":[42],"directional":[43,103],"regional":[44],"growing":[45,105],"guided":[46],"by":[47,67,100],"the":[48,53,58,79,87,102,107,170,173,177],"direction":[49],"of":[50,52,60,89,132,139,151,155,169,191],"neurites.":[54],"We":[55],"further":[56],"address":[57],"problem":[59],"sporadic":[61],"signal":[62,91],"variation":[63],"designing":[68],"local":[70,82],"attraction":[71,108,178],"force":[72,175],"field,":[73],"which":[74],"able":[76],"bridge":[78],"gaps":[80],"between":[81],"neurite":[83],"fragments,":[84],"even":[85],"case":[88],"complete":[90],"loss.":[92],"Segmentation":[93],"performed":[95],"integrated":[98],"fashion":[99],"incorporating":[101],"region":[104],"and":[106,141,176],"force-based":[109],"motion":[110],"single":[113],"using":[115],"level":[116],"sets.":[117],"This":[118],"accomplished":[121],"without":[122],"manual":[123],"seed":[124],"point":[125],"selection;":[126],"it":[127],"automated.":[129],"The":[130],"performance":[131],"TuFF":[133],"demonstrated":[135],"over":[136,159],"set":[138],"2D":[140],"3D":[142],"images":[145],"where":[146],"report":[148],"improvement":[150],">75%":[152],"terms":[154],"mean":[156],"absolute":[157],"error":[158],"three":[160],"extensively":[161],"used":[162],"neuron":[163],"algorithms.":[165],"Two":[166],"novel":[167],"features":[168],"solution,":[172],"evolution":[174],"force,":[179],"hold":[180],"promise":[181],"as":[182],"contributions":[183],"that":[184],"can":[185],"be":[186],"employed":[187],"number":[190],"analysis":[193],"applications.":[194]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}