{"id":"https://openalex.org/W2291721238","doi":"https://doi.org/10.1186/s13040-016-0088-2","title":"Robust normalization protocols for multiplexed fluorescence bioimage analysis","display_name":"Robust normalization protocols for multiplexed fluorescence bioimage analysis","publication_year":2016,"publication_date":"2016-03-04","ids":{"openalex":"https://openalex.org/W2291721238","doi":"https://doi.org/10.1186/s13040-016-0088-2","mag":"2291721238","pmid":"https://pubmed.ncbi.nlm.nih.gov/26949415"},"language":"en","primary_location":{"id":"doi:10.1186/s13040-016-0088-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-016-0088-2","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-016-0088-2","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-016-0088-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041645982","display_name":"Shan E Ahmed Raza","orcid":"https://orcid.org/0000-0002-1097-1738"},"institutions":[{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Shan E Ahmed Raza","raw_affiliation_strings":["Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK","Department of Computer Science, University of Warwick, Coventry, CV4 7AL, UK"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK","institution_ids":["https://openalex.org/I39555362"]},{"raw_affiliation_string":"Department of Computer Science, University of Warwick, Coventry, CV4 7AL, UK","institution_ids":["https://openalex.org/I39555362"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059961439","display_name":"Daniel Langenk\u00e4mper","orcid":"https://orcid.org/0000-0003-1857-5040"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daniel Langenk\u00e4mper","raw_affiliation_strings":["Biodata Mining Group, Bielefeld University, Bielefeld, Germany"],"affiliations":[{"raw_affiliation_string":"Biodata Mining Group, Bielefeld University, Bielefeld, Germany","institution_ids":["https://openalex.org/I20121455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037405971","display_name":"Korsuk Sirinukunwattana","orcid":"https://orcid.org/0000-0002-3603-4435"},"institutions":[{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Korsuk Sirinukunwattana","raw_affiliation_strings":["Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK","Department of Computer Science, University of Warwick, Coventry, CV4 7AL, UK"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK","institution_ids":["https://openalex.org/I39555362"]},{"raw_affiliation_string":"Department of Computer Science, University of Warwick, Coventry, CV4 7AL, UK","institution_ids":["https://openalex.org/I39555362"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022852434","display_name":"D. B. A. Epstein","orcid":"https://orcid.org/0000-0001-8634-7168"},"institutions":[{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David Epstein","raw_affiliation_strings":["Mathematics Institute, University of Warwick, Coventry, CV4 7AL UK","Mathematics Institute, University of Warwick, Coventry, CV4 7AL, UK"],"affiliations":[{"raw_affiliation_string":"Mathematics Institute, University of Warwick, Coventry, CV4 7AL UK","institution_ids":["https://openalex.org/I39555362"]},{"raw_affiliation_string":"Mathematics Institute, University of Warwick, Coventry, CV4 7AL, UK","institution_ids":["https://openalex.org/I39555362"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033485866","display_name":"Tim W. Nattkemper","orcid":"https://orcid.org/0000-0002-7986-1158"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Tim W. Nattkemper","raw_affiliation_strings":["Biodata Mining Group, Bielefeld University, Bielefeld, Germany"],"affiliations":[{"raw_affiliation_string":"Biodata Mining Group, Bielefeld University, Bielefeld, Germany","institution_ids":["https://openalex.org/I20121455"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5069179055","display_name":"Nasir Rajpoot","orcid":"https://orcid.org/0000-0002-4706-1308"},"institutions":[{"id":"https://openalex.org/I60342839","display_name":"Qatar University","ror":"https://ror.org/00yhnba62","country_code":"QA","type":"education","lineage":["https://openalex.org/I60342839"]}],"countries":["QA"],"is_corresponding":true,"raw_author_name":"Nasir M. Rajpoot","raw_affiliation_strings":["Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK ; Department of Computer Science and Engineering, Qatar University, Doha, Qatar","Department of Computer Science and Engineering, Qatar University, Doha, Qatar"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Warwick, Coventry, CV4 7AL UK ; Department of Computer Science and Engineering, Qatar University, Doha, Qatar","institution_ids":[]},{"raw_affiliation_string":"Department of Computer Science and Engineering, Qatar University, Doha, Qatar","institution_ids":["https://openalex.org/I60342839"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5069179055"],"corresponding_institution_ids":["https://openalex.org/I60342839"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.0155,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.89777012,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"9","issue":"1","first_page":"11","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9968000054359436,"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/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.9965000152587891,"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/normalization","display_name":"Normalization (sociology)","score":0.7346577048301697},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.724942684173584},{"id":"https://openalex.org/keywords/multiplexing","display_name":"Multiplexing","score":0.5214970707893372},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.40095001459121704},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.39630451798439026},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3690912127494812},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3442475199699402},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.10399004817008972}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.7346577048301697},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.724942684173584},{"id":"https://openalex.org/C19275194","wikidata":"https://www.wikidata.org/wiki/Q222903","display_name":"Multiplexing","level":2,"score":0.5214970707893372},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.40095001459121704},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.39630451798439026},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3690912127494812},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3442475199699402},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.10399004817008972},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13040-016-0088-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-016-0088-2","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-016-0088-2","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},{"id":"pmid:26949415","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26949415","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":"BioData mining","raw_type":null},{"id":"pmh:oai:wrap.warwick.ac.uk:78213","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400665","display_name":"Warwick Research Archive Portal (University of Warwick)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I39555362","host_organization_name":"University of Warwick","host_organization_lineage":["https://openalex.org/I39555362"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4779207","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4779207","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Min","raw_type":"Text"},{"id":"pmh:oai:qspace.qu.edu.qa:10576/4926","is_oa":true,"landing_page_url":"http://hdl.handle.net/10576/4926","pdf_url":null,"source":{"id":"https://openalex.org/S4306400014","display_name":"Qatar University QSpace (Qatar University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I60342839","host_organization_name":"Qatar University","host_organization_lineage":["https://openalex.org/I60342839"],"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":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1186/s13040-016-0088-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-016-0088-2","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-016-0088-2","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1279491222","display_name":null,"funder_award_id":"NPRP 5-1345-1-228","funder_id":"https://openalex.org/F4320332753","funder_display_name":"Qatar National Research Fund"},{"id":"https://openalex.org/G2520147004","display_name":null,"funder_award_id":"BB/K018868/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G3912542072","display_name":"Origin of new beta cells during pregnancy using PCLT and TIS microscopy","funder_award_id":"BB/K018868/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5360018987","display_name":null,"funder_award_id":"5-1345-1-228","funder_id":"https://openalex.org/F4320332753","funder_display_name":"Qatar National Research Fund"},{"id":"https://openalex.org/G5619585372","display_name":null,"funder_award_id":"NPRP 5 - 1345 - 1 - 228","funder_id":"https://openalex.org/F4320332753","funder_display_name":"Qatar National Research Fund"}],"funders":[{"id":"https://openalex.org/F4320321038","display_name":"Fonds National de la Recherche Luxembourg","ror":"https://ror.org/039z13y21"},{"id":"https://openalex.org/F4320332753","display_name":"Qatar National Research Fund","ror":"https://ror.org/01svaqq28"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2291721238.pdf","grobid_xml":"https://content.openalex.org/works/W2291721238.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W75235505","https://openalex.org/W995630646","https://openalex.org/W1566670946","https://openalex.org/W1599833391","https://openalex.org/W1663973292","https://openalex.org/W1873848535","https://openalex.org/W1972034516","https://openalex.org/W1979520135","https://openalex.org/W1993182928","https://openalex.org/W1996960965","https://openalex.org/W2004801541","https://openalex.org/W2010716737","https://openalex.org/W2015255108","https://openalex.org/W2021964673","https://openalex.org/W2031669752","https://openalex.org/W2035098389","https://openalex.org/W2038254572","https://openalex.org/W2039537951","https://openalex.org/W2040939169","https://openalex.org/W2041448562","https://openalex.org/W2043565262","https://openalex.org/W2053129129","https://openalex.org/W2073296628","https://openalex.org/W2074947364","https://openalex.org/W2076049405","https://openalex.org/W2099244020","https://openalex.org/W2113040864","https://openalex.org/W2114319457","https://openalex.org/W2146806964","https://openalex.org/W2158423544","https://openalex.org/W2169590180","https://openalex.org/W4229921563","https://openalex.org/W4237311034","https://openalex.org/W4249279441"],"related_works":["https://openalex.org/W2591697403","https://openalex.org/W2944728705","https://openalex.org/W2904022177","https://openalex.org/W2359348847","https://openalex.org/W3011538607","https://openalex.org/W4294432981","https://openalex.org/W4321441197","https://openalex.org/W2953716828","https://openalex.org/W2469820710","https://openalex.org/W4321276295"],"abstract_inverted_index":{"study":[0],"of":[1,5,20,59,80,116,190],"mapping":[2],"and":[3,57,67,111,165,181,196],"interaction":[4],"co-localized":[6,26],"proteins":[7,27],"at":[8],"a":[9,36,65,90,120,150,188],"sub-cellular":[10],"level":[11],"is":[12,28,73],"important":[13],"for":[14,78,155],"understanding":[15],"complex":[16],"biological":[17],"phenomena.":[18],"One":[19],"the":[21,31,81,101,114,117,129,137,146,171],"recent":[22],"techniques":[23,51],"to":[24,29,75,89],"map":[25],"use":[30],"standard":[32],"immuno-fluorescence":[33],"microscopy":[34],"in":[35,55],"cyclic":[37],"manner":[38],"(Nat":[39],"Biotechnol":[40],"24:1270-8,":[41],"2006;":[42],"Proc":[43],"Natl":[44],"Acad":[45],"Sci":[46],"110:11982-7,":[47],"2013).":[48],"Unfortunately,":[49],"these":[50],"suffer":[52],"from":[53,61,86,133,193],"variability":[54],"intensity":[56],"positioning":[58],"signals":[60],"protein":[62],"markers":[63],"within":[64,183],"run":[66],"across":[68],"different":[69,134],"runs.":[70],"Therefore,":[71],"it":[72],"necessary":[74],"standardize":[76],"protocols":[77,110],"preprocessing":[79],"multiplexed":[82],"bioimaging":[83],"(MBI)":[84],"data":[85,131,153],"multiple":[87],"runs":[88,135],"comparable":[91],"scale":[92],"before":[93],"any":[94],"further":[95],"analysis":[96],"can":[97],"be":[98],"performed":[99],"on":[100,113,128,149,187],"data.":[102],"In":[103],"this":[104],"paper,":[105],"we":[106],"compare":[107],"various":[108],"normalization":[109,122],"propose":[112],"basis":[115],"obtained":[118],"results,":[119],"robust":[121],"technique":[123],"that":[124,170],"produces":[125,174],"consistent":[126],"results":[127,143],"MBI":[130],"collected":[132],"using":[136],"Toponome":[138],"Imaging":[139],"System":[140],"(TIS).":[141],"Normalization":[142],"produced":[144],"by":[145,162],"proposed":[147,172],"method":[148,173],"sample":[151],"TIS":[152],"set":[154],"colorectal":[156,194],"cancer":[157,195],"patients":[158],"were":[159],"ranked":[160],"favorably":[161],"two":[163,166],"pathologists":[164],"biologists.":[167],"We":[168],"show":[169],"higher":[175],"between":[176],"class":[177,184],"Kullback-Leibler":[178],"(KL)":[179],"divergence":[180,186],"lower":[182],"KL":[185],"distribution":[189],"cell":[191],"phenotypes":[192],"histologically":[197],"normal":[198],"samples.":[199]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
