{"id":"https://openalex.org/W2056040742","doi":"https://doi.org/10.1186/1471-2105-11-587","title":"Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis","display_name":"Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis","publication_year":2010,"publication_date":"2010-11-30","ids":{"openalex":"https://openalex.org/W2056040742","doi":"https://doi.org/10.1186/1471-2105-11-587","mag":"2056040742","pmid":"https://pubmed.ncbi.nlm.nih.gov/21118553"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-587","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-587","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-587","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/counter/pdf/10.1186/1471-2105-11-587","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075682354","display_name":"Pan Du","orcid":"https://orcid.org/0000-0002-4561-6883"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pan Du","raw_affiliation_strings":["Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA. dupan@northwestern.edu","Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA. dupan@northwestern.edu","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100320904","display_name":"Xiao Zhang","orcid":"https://orcid.org/0000-0002-8448-3972"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiao Zhang","raw_affiliation_strings":["Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072014488","display_name":"Chiang\u2010Ching Huang","orcid":"https://orcid.org/0000-0003-4251-9911"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chiang-Ching Huang","raw_affiliation_strings":["Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012007158","display_name":"Nadereh Jafari","orcid":null},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nadereh Jafari","raw_affiliation_strings":["Center for Genetic Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Center for Genetic Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038170232","display_name":"Warren A. Kibbe","orcid":"https://orcid.org/0000-0001-5622-7659"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Warren A Kibbe","raw_affiliation_strings":["Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012727097","display_name":"Lifang Hou","orcid":"https://orcid.org/0000-0003-4877-0031"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lifang Hou","raw_affiliation_strings":["Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111991056","display_name":"Simon Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simon M Lin","raw_affiliation_strings":["Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"Northwestern University Biomedical Informatics Center (NUBIC), NUCATS, Feinberg School of Medicine, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"The Robert H. Lurie Comprehensive Cancer Center, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5075682354"],"corresponding_institution_ids":["https://openalex.org/I111979921"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":17.6191,"has_fulltext":true,"cited_by_count":2275,"citation_normalized_percentile":{"value":0.99576975,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"11","issue":"1","first_page":"587","last_page":"587"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":1.0,"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":1.0,"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":0.9940000176429749,"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"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9919000267982483,"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/methylation","display_name":"Methylation","score":0.7157939076423645},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.6661850810050964},{"id":"https://openalex.org/keywords/cpg-site","display_name":"CpG site","score":0.613690197467804},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.5016801357269287},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4772919714450836},{"id":"https://openalex.org/keywords/value","display_name":"Value (mathematics)","score":0.45213383436203003},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4170120358467102},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.35293954610824585},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2586440443992615},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.23332178592681885},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22402045130729675},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.12479990720748901}],"concepts":[{"id":"https://openalex.org/C33288867","wikidata":"https://www.wikidata.org/wiki/Q518328","display_name":"Methylation","level":3,"score":0.7157939076423645},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.6661850810050964},{"id":"https://openalex.org/C140173407","wikidata":"https://www.wikidata.org/wiki/Q1138358","display_name":"CpG site","level":5,"score":0.613690197467804},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.5016801357269287},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4772919714450836},{"id":"https://openalex.org/C2776291640","wikidata":"https://www.wikidata.org/wiki/Q2912517","display_name":"Value (mathematics)","level":2,"score":0.45213383436203003},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4170120358467102},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.35293954610824585},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2586440443992615},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.23332178592681885},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22402045130729675},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.12479990720748901}],"mesh":[{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018899","descriptor_name":"CpG Islands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D046228","descriptor_name":"Microarray Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D046228","descriptor_name":"Microarray Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D046228","descriptor_name":"Microarray Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-11-587","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-587","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-587","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:21118553","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21118553","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":null},{"id":"pmh:oai:doaj.org/article:4e17c2c466e64570afe035d83b75d4d5","is_oa":true,"landing_page_url":"https://doaj.org/article/4e17c2c466e64570afe035d83b75d4d5","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss 1, p 587 (2010)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2026640","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3012676","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-587","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-587","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-587","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":[{"display_name":"Life below water","id":"https://metadata.un.org/sdg/14","score":0.7300000190734863}],"awards":[{"id":"https://openalex.org/G1618314471","display_name":null,"funder_award_id":"RR025741","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7229151005","display_name":null,"funder_award_id":"UL1RR025741","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8383345127","display_name":null,"funder_award_id":"P30CA060553","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G989965792","display_name":null,"funder_award_id":"CA060553","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2056040742.pdf","grobid_xml":"https://content.openalex.org/works/W2056040742.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1979187574","https://openalex.org/W1998914928","https://openalex.org/W2000264668","https://openalex.org/W2010637767","https://openalex.org/W2029484950","https://openalex.org/W2039057614","https://openalex.org/W2040257851","https://openalex.org/W2074746593","https://openalex.org/W2092075890","https://openalex.org/W2096715243","https://openalex.org/W2106608030","https://openalex.org/W2107776519","https://openalex.org/W2110112697","https://openalex.org/W2116993454","https://openalex.org/W2141289961","https://openalex.org/W2146614932","https://openalex.org/W2148405421","https://openalex.org/W2149541458","https://openalex.org/W2150250444","https://openalex.org/W2273976338"],"related_works":["https://openalex.org/W2214376880","https://openalex.org/W3212149434","https://openalex.org/W2073893804","https://openalex.org/W2291484187","https://openalex.org/W2902329290","https://openalex.org/W2169344098","https://openalex.org/W2045854104","https://openalex.org/W2052355316","https://openalex.org/W2128056428","https://openalex.org/W2046964473"],"abstract_inverted_index":{"The":[0],"Beta-value":[1,37],"has":[2],"a":[3],"more":[4,12],"intuitive":[5],"biological":[6],"interpretation,":[7],"but":[8],"the":[9,16,26,36,41],"M-value":[10,27],"is":[11],"statistically":[13],"valid":[14],"for":[15,29],"differential":[17,31],"analysis":[18,33],"of":[19],"methylation":[20,32],"levels.":[21],"Therefore,":[22],"we":[23],"recommend":[24],"using":[25],"method":[28],"conducting":[30],"and":[34],"including":[35],"statistics":[38],"when":[39],"reporting":[40],"results":[42],"to":[43],"investigators.":[44]},"counts_by_year":[{"year":2026,"cited_by_count":35},{"year":2025,"cited_by_count":134},{"year":2024,"cited_by_count":237},{"year":2023,"cited_by_count":222},{"year":2022,"cited_by_count":231},{"year":2021,"cited_by_count":279},{"year":2020,"cited_by_count":198},{"year":2019,"cited_by_count":172},{"year":2018,"cited_by_count":156},{"year":2017,"cited_by_count":137},{"year":2016,"cited_by_count":126},{"year":2015,"cited_by_count":120},{"year":2014,"cited_by_count":95},{"year":2013,"cited_by_count":79},{"year":2012,"cited_by_count":43}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
