{"id":"https://openalex.org/W2161687993","doi":"https://doi.org/10.1186/1751-0473-9-11","title":"Methylation plotter: a web tool for dynamic visualization of DNA methylation data","display_name":"Methylation plotter: a web tool for dynamic visualization of DNA methylation data","publication_year":2014,"publication_date":"2014-06-06","ids":{"openalex":"https://openalex.org/W2161687993","doi":"https://doi.org/10.1186/1751-0473-9-11","mag":"2161687993","pmid":"https://pubmed.ncbi.nlm.nih.gov/25260021"},"language":"en","primary_location":{"id":"doi:10.1186/1751-0473-9-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-9-11","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-9-11","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"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":"Source Code for Biology and Medicine","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-9-11","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5020781057","display_name":"Izaskun Mallona","orcid":"https://orcid.org/0000-0002-2853-7526"},"institutions":[{"id":"https://openalex.org/I4210163547","display_name":"Institute of Predictive and Personalized Medicine of Cancer","ror":"https://ror.org/05hxqvt36","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210163547"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Izaskun Mallona","raw_affiliation_strings":["Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain"],"affiliations":[{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","institution_ids":[]},{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain","institution_ids":["https://openalex.org/I4210163547"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078667529","display_name":"Anna D\u00edez-Villanueva","orcid":"https://orcid.org/0000-0002-1696-5523"},"institutions":[{"id":"https://openalex.org/I4210163547","display_name":"Institute of Predictive and Personalized Medicine of Cancer","ror":"https://ror.org/05hxqvt36","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210163547"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Anna D\u00edez-Villanueva","raw_affiliation_strings":["Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain"],"affiliations":[{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","institution_ids":[]},{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain","institution_ids":["https://openalex.org/I4210163547"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020891392","display_name":"Miguel A. Peinado","orcid":"https://orcid.org/0000-0002-4090-793X"},"institutions":[{"id":"https://openalex.org/I4210163547","display_name":"Institute of Predictive and Personalized Medicine of Cancer","ror":"https://ror.org/05hxqvt36","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210163547"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Miguel A Peinado","raw_affiliation_strings":["Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain"],"affiliations":[{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain ; Health Research Institute Germans Trias i Pujol (IGTP), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916 Badalona, Spain","institution_ids":[]},{"raw_affiliation_string":"Institute of Predictive and Personalized Medicine of Cancer (IMPPC), Ctra. de Can Ruti, cam\u00ed de les escoles, s/n, 08916, Badalona, Spain","institution_ids":["https://openalex.org/I4210163547"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5020781057"],"corresponding_institution_ids":["https://openalex.org/I4210163547"],"apc_list":null,"apc_paid":null,"fwci":2.139,"has_fulltext":true,"cited_by_count":66,"citation_normalized_percentile":{"value":0.87799786,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9997000098228455,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9997000098228455,"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/T11928","display_name":"Genetic Syndromes and Imprinting","score":0.9726999998092651,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/plotter","display_name":"Plotter","score":0.8188918828964233},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6865112781524658},{"id":"https://openalex.org/keywords/plot","display_name":"Plot (graphics)","score":0.6390554904937744},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6178637146949768},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5960639715194702},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.4757649302482605},{"id":"https://openalex.org/keywords/methylation","display_name":"Methylation","score":0.4709167182445526},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.43677806854248047},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.42822733521461487},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3838514983654022},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.34111058712005615},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3308188319206238},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22455784678459167},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.17603495717048645},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1589164435863495},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10699665546417236}],"concepts":[{"id":"https://openalex.org/C124772163","wikidata":"https://www.wikidata.org/wiki/Q193255","display_name":"Plotter","level":2,"score":0.8188918828964233},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6865112781524658},{"id":"https://openalex.org/C167651023","wikidata":"https://www.wikidata.org/wiki/Q1474611","display_name":"Plot (graphics)","level":2,"score":0.6390554904937744},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6178637146949768},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5960639715194702},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.4757649302482605},{"id":"https://openalex.org/C33288867","wikidata":"https://www.wikidata.org/wiki/Q518328","display_name":"Methylation","level":3,"score":0.4709167182445526},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.43677806854248047},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.42822733521461487},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3838514983654022},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.34111058712005615},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3308188319206238},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22455784678459167},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.17603495717048645},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1589164435863495},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10699665546417236},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1186/1751-0473-9-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-9-11","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-9-11","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"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":"Source Code for Biology and Medicine","raw_type":"journal-article"},{"id":"pmid:25260021","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25260021","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":"Source code for biology and medicine","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4066318","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4066318","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Source Code Biol Med","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1751-0473-9-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-9-11","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-9-11","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"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":"Source Code for Biology and Medicine","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.7099999785423279}],"awards":[{"id":"https://openalex.org/G3893146806","display_name":null,"funder_award_id":"2009 SGR 1356","funder_id":"https://openalex.org/F4320321505","funder_display_name":"Generalitat de Catalunya"}],"funders":[{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2161687993.pdf","grobid_xml":"https://content.openalex.org/works/W2161687993.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1977501586","https://openalex.org/W2029197798","https://openalex.org/W2074746593","https://openalex.org/W2087506574","https://openalex.org/W2096435507","https://openalex.org/W2097851896","https://openalex.org/W2114970231","https://openalex.org/W2115637687","https://openalex.org/W2119224628","https://openalex.org/W2119493125","https://openalex.org/W2141410747","https://openalex.org/W2148405421","https://openalex.org/W2150859763","https://openalex.org/W2161584400","https://openalex.org/W4399638148"],"related_works":["https://openalex.org/W2035454013","https://openalex.org/W286383902","https://openalex.org/W2358598968","https://openalex.org/W2385965307","https://openalex.org/W2333717443","https://openalex.org/W1611949692","https://openalex.org/W4210473480","https://openalex.org/W2077377645","https://openalex.org/W150809787","https://openalex.org/W228085979"],"abstract_inverted_index":{"Methylation":[0,115,182,259],"plotter":[1,183,260],"is":[2,23,62,238,261],"a":[3,14,27,34,53,60,63,128,185,197,209,243],"Web":[4],"tool":[5,73,137],"that":[6,98,189,199,211,248],"allows":[7,138],"the":[8,30,49,69,72,79,82,100,136,139,149,152,169,179,191,194,202,213,253],"visualization":[9],"of":[10,33,78,91,102,135,146,148,193,255],"methylation":[11,31,159,186],"data":[12,70,173,214],"in":[13,110,151,171,240],"user-friendly":[15],"manner":[16],"and":[17,45,106,208,224,231],"with":[18,219],"publication-ready":[19],"quality.":[20],"The":[21,236],"user":[22,50,140,246],"asked":[24],"to":[25,42,87,121,141,178],"introduce":[26],"file":[28,38],"containing":[29],"status":[32,101,192],"genomic":[35],"region.":[36],"This":[37],"can":[39,51],"contain":[40],"up":[41,201],"100":[43,46],"samples":[44,150],"CpGs.":[47],"Optionally,":[48],"assign":[52],"group":[54,232],"for":[55,107,154,226],"each":[56],"sample":[57,61,109],"(i.e.":[58],"whether":[59],"tumoral":[64],"or":[65,112,166],"normal":[66],"tissue).":[67],"After":[68],"upload,":[71],"produces":[74,184],"different":[75,144],"graphical":[76],"representations":[77],"results":[80],"following":[81,168],"most":[83],"commonly":[84],"used":[85],"styles":[86],"display":[88],"this":[89,220],"type":[90],"data.":[92],"They":[93],"include":[94],"an":[95],"interactive":[96],"plot":[97,188],"summarizes":[99,190],"every":[103,108],"CpG":[104,230],"site":[105],"lollipop":[111],"grid":[113],"styles.":[114],"values":[116],"ranging":[117],"from":[118,143],"0":[119],"(unmethylated)":[120],"1":[122],"(fully":[123],"methylated)":[124],"are":[125,234],"represented":[126],"using":[127],"gray":[129],"color":[130],"gradient.":[131],"A":[132],"practical":[133],"feature":[134],"choose":[142],"types":[145],"arrangement":[147],"display:":[153],"instance,":[155],"sorting":[156],"by":[157,161,163,215],"overall":[158],"level,":[160],"group,":[162],"unsupervised":[164,216],"clustering":[165],"just":[167],"order":[170],"which":[172],"were":[174],"entered.":[175],"In":[176],"addition":[177],"detailed":[180],"plot,":[181],"profile":[187],"scrutinized":[195],"region,":[196],"boxplot":[198],"sums":[200],"differences":[203,227],"between":[204],"groups":[205],"(if":[206],"any)":[207],"dendrogram":[210],"classifies":[212],"clustering.":[217],"Coupled":[218],"analysis,":[221],"descriptive":[222],"statistics":[223],"testing":[225],"at":[228,264],"both":[229],"levels":[233],"provided.":[235],"implementation":[237],"based":[239],"R/shiny,":[241],"providing":[242],"highly":[244],"dynamic":[245],"interface":[247],"generates":[249],"quality":[250],"graphics":[251],"without":[252],"need":[254],"writing":[256],"R":[257],"code.":[258],"freely":[262],"available":[263],"http://gattaca.imppc.org:3838/methylation_plotter/.":[265]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":9},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
