{"id":"https://openalex.org/W2165848594","doi":"https://doi.org/10.1186/s12859-015-0759-x","title":"CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data","display_name":"CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data","publication_year":2015,"publication_date":"2015-11-04","ids":{"openalex":"https://openalex.org/W2165848594","doi":"https://doi.org/10.1186/s12859-015-0759-x","mag":"2165848594","pmid":"https://pubmed.ncbi.nlm.nih.gov/26537300"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0759-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0759-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-015-0759-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-015-0759-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059045145","display_name":"Mark\u2010Anthony Bray","orcid":"https://orcid.org/0000-0002-9748-3592"},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark-Anthony Bray","raw_affiliation_strings":["Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA. mbray@broadinstitute.org","Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA. mbray@broadinstitute.org","institution_ids":["https://openalex.org/I107606265"]},{"raw_affiliation_string":"Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA","institution_ids":["https://openalex.org/I107606265"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052473265","display_name":"Anne E. Carpenter","orcid":"https://orcid.org/0000-0003-1555-8261"},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Anne E. Carpenter","raw_affiliation_strings":["Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA. anne@broadinstitute.org","Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA. anne@broadinstitute.org","institution_ids":["https://openalex.org/I107606265"]},{"raw_affiliation_string":"Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA","institution_ids":["https://openalex.org/I107606265"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5052473265"],"corresponding_institution_ids":["https://openalex.org/I107606265"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":5.7074,"has_fulltext":true,"cited_by_count":48,"citation_normalized_percentile":{"value":0.95327874,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"16","issue":"1","first_page":"368","last_page":"368"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9969000220298767,"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":0.9969000220298767,"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":0.0007999999797903001,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.0005000000237487257,"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/computer-science","display_name":"Computer science","score":0.763984203338623},{"id":"https://openalex.org/keywords/tracking","display_name":"Tracking (education)","score":0.6345800161361694},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5940713882446289},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5043221712112427},{"id":"https://openalex.org/keywords/tracer","display_name":"TRACER","score":0.4759799540042877},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.45040494203567505},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4292599856853485},{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.4185195863246918}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.763984203338623},{"id":"https://openalex.org/C2775936607","wikidata":"https://www.wikidata.org/wiki/Q466845","display_name":"Tracking (education)","level":2,"score":0.6345800161361694},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5940713882446289},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5043221712112427},{"id":"https://openalex.org/C2778863792","wikidata":"https://www.wikidata.org/wiki/Q16909918","display_name":"TRACER","level":2,"score":0.4759799540042877},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.45040494203567505},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4292599856853485},{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.4185195863246918},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"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/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C185544564","wikidata":"https://www.wikidata.org/wiki/Q81197","display_name":"Nuclear physics","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"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":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058948","descriptor_name":"Cell Tracking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058948","descriptor_name":"Cell Tracking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058948","descriptor_name":"Cell Tracking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D061986","descriptor_name":"MCF-7 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D061986","descriptor_name":"MCF-7 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D061986","descriptor_name":"MCF-7 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12859-015-0759-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0759-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-015-0759-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26537300","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26537300","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4634901","is_oa":true,"landing_page_url":"http://doi.org/10.1186/s12859-015-0759-x","pdf_url":null,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-015-0759-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0759-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-015-0759-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3326864172","display_name":null,"funder_award_id":"NIH R01","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3574068241","display_name":"Continued Development of CellProfiler Cell Image Analysis Software","funder_award_id":"5r01gm089652-06","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4164406149","display_name":"RIG:   Improving data quality and discovery tools in high-throughput microscopy","funder_award_id":"1119830","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5151904225","display_name":null,"funder_award_id":"NIH R01 GM089652","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5520316217","display_name":null,"funder_award_id":"NIH-R01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6929152548","display_name":null,"funder_award_id":"R01 GM089652","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2165848594.pdf","grobid_xml":"https://content.openalex.org/works/W2165848594.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W48566380","https://openalex.org/W149540474","https://openalex.org/W1538996158","https://openalex.org/W1771917072","https://openalex.org/W1969697456","https://openalex.org/W1972102879","https://openalex.org/W1980152667","https://openalex.org/W1988856432","https://openalex.org/W1989396876","https://openalex.org/W1989493360","https://openalex.org/W2009706521","https://openalex.org/W2030233281","https://openalex.org/W2038731209","https://openalex.org/W2065455422","https://openalex.org/W2086447272","https://openalex.org/W2087037704","https://openalex.org/W2100334298","https://openalex.org/W2102957735","https://openalex.org/W2103706175","https://openalex.org/W2105916176","https://openalex.org/W2107554012","https://openalex.org/W2114176419","https://openalex.org/W2121469024","https://openalex.org/W2124426078","https://openalex.org/W2132687696","https://openalex.org/W2139442812","https://openalex.org/W2141273399","https://openalex.org/W2142532592","https://openalex.org/W2320839648"],"related_works":["https://openalex.org/W2001254114","https://openalex.org/W2045362891","https://openalex.org/W1987137663","https://openalex.org/W2090152913","https://openalex.org/W2018752697","https://openalex.org/W1966069390","https://openalex.org/W1998782558","https://openalex.org/W2054546918","https://openalex.org/W2080122327","https://openalex.org/W1970746087"],"abstract_inverted_index":{"BACKGROUND:":[0],"Time-lapse":[1],"analysis":[2,105],"of":[3,48,76,100,157],"cellular":[4],"images":[5],"is":[6,26,147],"an":[7],"important":[8],"and":[9,65,91,132,154],"growing":[10],"need":[11],"in":[12,41,80],"biology.":[13],"Algorithms":[14],"for":[15,52,57,129,139,152],"cell":[16],"tracking":[17,35,55,98,142,159],"are":[18],"widely":[19],"available;":[20],"what":[21],"researchers":[22,53],"have":[23,121],"been":[24,123],"missing":[25],"a":[27,42,68,81,89,148],"single":[28],"open-source":[29,92],"software":[30,38],"package":[31],"to":[32,112],"visualize":[33],"standard":[34],"output":[36],"(from":[37],"like":[39],"CellProfiler)":[40],"way":[43],"that":[44,94,120],"allows":[45,108],"convenient":[46],"assessment":[47,64],"track":[49],"quality,":[50],"especially":[51],"tuning":[54],"parameters":[56],"high-content":[58],"time-lapse":[59,77,130],"experiments.":[60],"This":[61],"makes":[62],"quality":[63,155],"algorithm":[66],"adjustment":[67],"substantial":[69],"challenge,":[70],"particularly":[71],"when":[72],"dealing":[73],"with":[74,135],"hundreds":[75],"movies":[78],"collected":[79],"high-throughput":[82],"manner.":[83],"RESULTS:":[84],"We":[85],"present":[86],"CellProfiler":[87,102,145],"Tracer,":[88],"free":[90,150],"tool":[93,151],"complements":[95],"the":[96,101,126],"object":[97,116,158],"functionality":[99],"biological":[103],"image":[104],"package.":[106],"Tracer":[107,146],"multi-parametric":[109],"morphological":[110],"data":[111],"be":[113],"visualized":[114],"on":[115],"tracks,":[117],"providing":[118],"visualizations":[119],"already":[122],"validated":[124],"within":[125],"scientific":[127],"community":[128],"experiments,":[131],"combining":[133],"them":[134],"simple":[136],"graph-based":[137],"measures":[138],"highlighting":[140],"possible":[141],"artifacts.":[143],"CONCLUSIONS:":[144],"useful,":[149],"inspection":[153],"control":[156],"data,":[160],"available":[161],"from":[162],"http://www.cellprofiler.org/tracer/.":[163]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":4}],"updated_date":"2026-08-22T07:34:49.880490","created_date":"2025-10-10T00:00:00"}
