{"id":"https://openalex.org/W2116870480","doi":"https://doi.org/10.1109/isbi.2011.5872785","title":"Automated lineage tree reconstruction from Caenorhabditis elegans image data using particle filtering based cell tracking","display_name":"Automated lineage tree reconstruction from Caenorhabditis elegans image data using particle filtering based cell tracking","publication_year":2011,"publication_date":"2011-03-01","ids":{"openalex":"https://openalex.org/W2116870480","doi":"https://doi.org/10.1109/isbi.2011.5872785","mag":"2116870480"},"language":"en","primary_location":{"id":"doi:10.1109/isbi.2011.5872785","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2011.5872785","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5044907364","display_name":"Noem\u00ed Carranza","orcid":"https://orcid.org/0000-0002-5193-2540"},"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":"Noem\u00ed Carranza","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","institution_ids":["https://openalex.org/I2801952686"]},{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026507016","display_name":"Ihor Smal","orcid":"https://orcid.org/0000-0001-7576-7028"},"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":false,"raw_author_name":"Ihor Smal","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","institution_ids":["https://openalex.org/I2801952686"]},{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006657933","display_name":"Oleh Dzyubachyk","orcid":"https://orcid.org/0000-0003-1344-7189"},"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":false,"raw_author_name":"Oleh Dzyubachyk","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","institution_ids":["https://openalex.org/I2801952686"]},{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038384386","display_name":"Wiro J. Niessen","orcid":"https://orcid.org/0000-0002-5822-1995"},"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":false,"raw_author_name":"Wiro Niessen","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","institution_ids":["https://openalex.org/I2801952686"]},{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands","institution_ids":[]}]},{"author_position":"last","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":false,"raw_author_name":"Erik Meijering","raw_affiliation_strings":["Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC - University Medical Center Rotterdam, The Netherlands","institution_ids":["https://openalex.org/I2801952686"]},{"raw_affiliation_string":"Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC-University Medical Center, Rotterdam, The Netherlands","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5044907364"],"corresponding_institution_ids":["https://openalex.org/I2801952686"],"apc_list":null,"apc_paid":null,"fwci":0.6514,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.68591044,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"1921","last_page":"1924"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9980999827384949,"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"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9980999827384949,"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"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9952999949455261,"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/T10676","display_name":"Genetics, Aging, and Longevity in Model Organisms","score":0.9817000031471252,"subfield":{"id":"https://openalex.org/subfields/1302","display_name":"Aging"},"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/lineage","display_name":"Lineage (genetic)","score":0.6677073240280151},{"id":"https://openalex.org/keywords/caenorhabditis-elegans","display_name":"Caenorhabditis elegans","score":0.6648499965667725},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6322475671768188},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6315920352935791},{"id":"https://openalex.org/keywords/particle-filter","display_name":"Particle filter","score":0.513736367225647},{"id":"https://openalex.org/keywords/tracking","display_name":"Tracking (education)","score":0.49907922744750977},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.48717278242111206},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4282362163066864},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.404536634683609},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3564147353172302},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3384026885032654},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.33196473121643066},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30971038341522217},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20910701155662537},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13419005274772644},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12173053622245789},{"id":"https://openalex.org/keywords/kalman-filter","display_name":"Kalman filter","score":0.10697418451309204}],"concepts":[{"id":"https://openalex.org/C2776817793","wikidata":"https://www.wikidata.org/wiki/Q6553369","display_name":"Lineage (genetic)","level":3,"score":0.6677073240280151},{"id":"https://openalex.org/C2778944004","wikidata":"https://www.wikidata.org/wiki/Q91703","display_name":"Caenorhabditis elegans","level":3,"score":0.6648499965667725},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6322475671768188},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6315920352935791},{"id":"https://openalex.org/C52421305","wikidata":"https://www.wikidata.org/wiki/Q1151499","display_name":"Particle filter","level":3,"score":0.513736367225647},{"id":"https://openalex.org/C2775936607","wikidata":"https://www.wikidata.org/wiki/Q466845","display_name":"Tracking (education)","level":2,"score":0.49907922744750977},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.48717278242111206},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4282362163066864},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.404536634683609},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3564147353172302},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3384026885032654},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.33196473121643066},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30971038341522217},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20910701155662537},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13419005274772644},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12173053622245789},{"id":"https://openalex.org/C157286648","wikidata":"https://www.wikidata.org/wiki/Q846780","display_name":"Kalman filter","level":2,"score":0.10697418451309204},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C19417346","wikidata":"https://www.wikidata.org/wiki/Q7922","display_name":"Pedagogy","level":1,"score":0.0},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/isbi.2011.5872785","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isbi.2011.5872785","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W1483307070","https://openalex.org/W1989952069","https://openalex.org/W2000396646","https://openalex.org/W2018824728","https://openalex.org/W2067191022","https://openalex.org/W2101916976","https://openalex.org/W2109365020","https://openalex.org/W2139856867","https://openalex.org/W2157840858","https://openalex.org/W2160337655"],"related_works":["https://openalex.org/W1987113372","https://openalex.org/W1989212443","https://openalex.org/W2103644279","https://openalex.org/W4302986566","https://openalex.org/W877199042","https://openalex.org/W1968585197","https://openalex.org/W2163445067","https://openalex.org/W4247544095","https://openalex.org/W2122155275","https://openalex.org/W2578129866"],"abstract_inverted_index":{"Caenorhabditis":[0],"elegans":[1,93],"is":[2,113,136],"an":[3],"important":[4],"model":[5],"organism":[6],"for":[7,59,91],"the":[8,121,132,140,146],"study":[9],"of":[10,13,34,108],"molecular":[11],"mechanisms":[12],"development":[14],"and":[15,23,37,41,46,50,66,79,96,156],"disease":[16],"processes,":[17],"due":[18],"to":[19,44,51,75,138],"its":[20],"well-known":[21],"genome":[22],"invariant":[24],"cell":[25,94],"lineage":[26,48,97,141],"tree.":[27],"Such":[28],"studies":[29],"generally":[30],"produce":[31],"vast":[32],"amounts":[33],"image":[35,128],"data,":[36],"require":[38,68],"very":[39],"robust":[40],"efficient":[42],"algorithms":[43],"extract":[45],"characterize":[47],"phenotypes":[49],"determine":[52],"gene":[53],"expression":[54],"patterns.":[55],"Previously":[56],"published":[57],"methods":[58],"this":[60,84],"purpose":[61],"show":[62],"only":[63],"mediocre":[64],"performance":[65],"often":[67],"extensive":[69],"manual":[70,150],"post-processing.":[71],"The":[72,111],"challenge":[73],"remains":[74],"develop":[76],"more":[77],"powerful":[78],"fully":[80],"automated":[81],"methods.":[82],"In":[83],"paper":[85],"we":[86],"propose":[87],"a":[88,101,116],"new":[89,133],"algorithm":[90,135],"C.":[92],"tracking":[95,112,134],"reconstruction,":[98],"based":[99,119],"on":[100,120,126],"Bayesian":[102],"estimation":[103],"framework,":[104],"implemented":[105],"by":[106],"means":[107],"particle":[109],"filtering.":[110],"enhanced":[114],"with":[115,157],"detection":[117],"stage,":[118,148],"h-dome":[122],"transform.":[123],"Preliminary":[124],"experiments":[125],"several":[127],"sequences":[129],"demonstrate":[130],"that":[131],"able":[137],"reconstruct":[139],"tree,":[142],"at":[143,152],"least":[144],"until":[145],"350-cell":[147],"without":[149],"intervention,":[151],"low":[153,158],"computational":[154],"cost":[155],"error":[159],"rates.":[160]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
