Epigenome wide association study of response to methotrexate in early rheumatoid arthritis patients
To identify differentially methylated positions (DMPs) and regions (DMRs) that predict response to Methotrexate (MTX) in early rheumatoid arthritis (RA) patients. DNA from baseline peripheral blood mononuclear cells was extracted from 72 RA patients. DNA methylation, quantified using the Infinium Me...
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| Veröffentlicht in: | PloS one 2021-03, Vol.16 (3), p.e0247709-e0247709 |
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| creator | Gosselt, Helen R Vallerga, Costanza L Mandaviya, Pooja R Lubberts, Erik Hazes, Johanna M W de Jonge, Robert Heil, Sandra G |
| description | To identify differentially methylated positions (DMPs) and regions (DMRs) that predict response to Methotrexate (MTX) in early rheumatoid arthritis (RA) patients.
DNA from baseline peripheral blood mononuclear cells was extracted from 72 RA patients. DNA methylation, quantified using the Infinium MethylationEPIC, was assessed in relation to response to MTX (combination) therapy over the first 3 months.
Baseline DMPs associated with response were identified; including hits previously described in RA. Additionally, 1309 DMR regions were observed. However, none of these findings were genome-wide significant. Likewise, no specific pathways were related to response, nor could we replicate associations with previously identified DMPs.
No baseline genome-wide significant differences were identified as biomarker for MTX (combination) therapy response; hence meta-analyses are required. |
| doi_str_mv | 10.1371/journal.pone.0247709 |
| format | Article |
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DNA from baseline peripheral blood mononuclear cells was extracted from 72 RA patients. DNA methylation, quantified using the Infinium MethylationEPIC, was assessed in relation to response to MTX (combination) therapy over the first 3 months.
Baseline DMPs associated with response were identified; including hits previously described in RA. Additionally, 1309 DMR regions were observed. However, none of these findings were genome-wide significant. Likewise, no specific pathways were related to response, nor could we replicate associations with previously identified DMPs.
No baseline genome-wide significant differences were identified as biomarker for MTX (combination) therapy response; hence meta-analyses are required.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0247709</identifier><identifier>PMID: 33690661</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Arthritis ; Biology and life sciences ; Care and treatment ; Chemistry ; Cost analysis ; Deoxyribonucleic acid ; DNA ; DNA methylation ; DNA probes ; Editing ; Funding ; Gastroenterology ; Genetic aspects ; Health care facilities ; Internal medicine ; Joints (anatomy) ; Lymphocytes ; Medical ethics ; Medicine ; Medicine and Health Sciences ; Metabolism ; Methodology ; Methotrexate ; Physical Sciences ; Physiological aspects ; Probes ; Quality control ; Research and Analysis Methods ; Response rates ; Rheumatoid arthritis ; Rheumatology ; Supervision ; Testing</subject><ispartof>PloS one, 2021-03, Vol.16 (3), p.e0247709-e0247709</ispartof><rights>COPYRIGHT 2021 Public Library of Science</rights><rights>2021 Gosselt et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2021 Gosselt et al 2021 Gosselt et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-bfb9226533a7073cba4a8b7cbf1510ee99351ad12a1462e7bc3b9a87a507d91c3</citedby><cites>FETCH-LOGICAL-c692t-bfb9226533a7073cba4a8b7cbf1510ee99351ad12a1462e7bc3b9a87a507d91c3</cites><orcidid>0000-0002-9262-7411</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7946177/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7946177/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,865,886,2103,2929,23868,27926,27927,53793,53795</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33690661$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Shioda, Toshi</contributor><creatorcontrib>Gosselt, Helen R</creatorcontrib><creatorcontrib>Vallerga, Costanza L</creatorcontrib><creatorcontrib>Mandaviya, Pooja R</creatorcontrib><creatorcontrib>Lubberts, Erik</creatorcontrib><creatorcontrib>Hazes, Johanna M W</creatorcontrib><creatorcontrib>de Jonge, Robert</creatorcontrib><creatorcontrib>Heil, Sandra G</creatorcontrib><title>Epigenome wide association study of response to methotrexate in early rheumatoid arthritis patients</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>To identify differentially methylated positions (DMPs) and regions (DMRs) that predict response to Methotrexate (MTX) in early rheumatoid arthritis (RA) patients.
DNA from baseline peripheral blood mononuclear cells was extracted from 72 RA patients. DNA methylation, quantified using the Infinium MethylationEPIC, was assessed in relation to response to MTX (combination) therapy over the first 3 months.
Baseline DMPs associated with response were identified; including hits previously described in RA. Additionally, 1309 DMR regions were observed. However, none of these findings were genome-wide significant. Likewise, no specific pathways were related to response, nor could we replicate associations with previously identified DMPs.
No baseline genome-wide significant differences were identified as biomarker for MTX (combination) therapy response; hence meta-analyses are required.</description><subject>Arthritis</subject><subject>Biology and life sciences</subject><subject>Care and treatment</subject><subject>Chemistry</subject><subject>Cost analysis</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA methylation</subject><subject>DNA probes</subject><subject>Editing</subject><subject>Funding</subject><subject>Gastroenterology</subject><subject>Genetic aspects</subject><subject>Health care facilities</subject><subject>Internal medicine</subject><subject>Joints (anatomy)</subject><subject>Lymphocytes</subject><subject>Medical ethics</subject><subject>Medicine</subject><subject>Medicine and Health Sciences</subject><subject>Metabolism</subject><subject>Methodology</subject><subject>Methotrexate</subject><subject>Physical Sciences</subject><subject>Physiological aspects</subject><subject>Probes</subject><subject>Quality control</subject><subject>Research and Analysis Methods</subject><subject>Response rates</subject><subject>Rheumatoid 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(anatomy)</topic><topic>Lymphocytes</topic><topic>Medical ethics</topic><topic>Medicine</topic><topic>Medicine and Health Sciences</topic><topic>Metabolism</topic><topic>Methodology</topic><topic>Methotrexate</topic><topic>Physical Sciences</topic><topic>Physiological aspects</topic><topic>Probes</topic><topic>Quality control</topic><topic>Research and Analysis Methods</topic><topic>Response rates</topic><topic>Rheumatoid arthritis</topic><topic>Rheumatology</topic><topic>Supervision</topic><topic>Testing</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Gosselt, Helen R</creatorcontrib><creatorcontrib>Vallerga, Costanza L</creatorcontrib><creatorcontrib>Mandaviya, Pooja R</creatorcontrib><creatorcontrib>Lubberts, Erik</creatorcontrib><creatorcontrib>Hazes, Johanna M W</creatorcontrib><creatorcontrib>de Jonge, Robert</creatorcontrib><creatorcontrib>Heil, Sandra 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one</jtitle><addtitle>PLoS One</addtitle><date>2021-03-10</date><risdate>2021</risdate><volume>16</volume><issue>3</issue><spage>e0247709</spage><epage>e0247709</epage><pages>e0247709-e0247709</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>To identify differentially methylated positions (DMPs) and regions (DMRs) that predict response to Methotrexate (MTX) in early rheumatoid arthritis (RA) patients.
DNA from baseline peripheral blood mononuclear cells was extracted from 72 RA patients. DNA methylation, quantified using the Infinium MethylationEPIC, was assessed in relation to response to MTX (combination) therapy over the first 3 months.
Baseline DMPs associated with response were identified; including hits previously described in RA. Additionally, 1309 DMR regions were observed. However, none of these findings were genome-wide significant. Likewise, no specific pathways were related to response, nor could we replicate associations with previously identified DMPs.
No baseline genome-wide significant differences were identified as biomarker for MTX (combination) therapy response; hence meta-analyses are required.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>33690661</pmid><doi>10.1371/journal.pone.0247709</doi><tpages>e0247709</tpages><orcidid>https://orcid.org/0000-0002-9262-7411</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Arthritis Biology and life sciences Care and treatment Chemistry Cost analysis Deoxyribonucleic acid DNA DNA methylation DNA probes Editing Funding Gastroenterology Genetic aspects Health care facilities Internal medicine Joints (anatomy) Lymphocytes Medical ethics Medicine Medicine and Health Sciences Metabolism Methodology Methotrexate Physical Sciences Physiological aspects Probes Quality control Research and Analysis Methods Response rates Rheumatoid arthritis Rheumatology Supervision Testing |
| title | Epigenome wide association study of response to methotrexate in early rheumatoid arthritis patients |
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