Intergenic and intronic DNA hypomethylated regions as putative regulators of imprinted domains
To investigate the regulatory potential of intergenic/intronic hypomethylated regions (iHMRs) within imprinted domains. Based on the preliminary results of the histone modification and conservation profiles, we conducted reporter assays on the and domain iHMRs. The results were confirmed by the dele...
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| Veröffentlicht in: | Epigenomics 2018-04, Vol.10 (4), p.445-461 |
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| creator | Bakshi, Arundhati Bretz, Corey L Cain, Terri L Kim, Joomyeong |
| description | To investigate the regulatory potential of intergenic/intronic hypomethylated regions (iHMRs) within imprinted domains.
Based on the preliminary results of the histone modification and conservation profiles, we conducted reporter assays on the
and
domain iHMRs. The
results were confirmed by the
deletion of
-iHMR designed to test its function in the
imprinted domain.
Initial bioinformatic analyses suggested that some iHMRs may be noncanonical enhancers for imprinted genes. Consistent with this,
- and
-iHMRs showed context-dependent promoter and enhancer activity. Further, deletion of
-iHMR resulted in allele- and sex-specific misregulation of several imprinted genes within the domain. Taken together, these results suggest that some iHMRs may function as domain-wide regulators for the associated imprinted domains. |
| doi_str_mv | 10.2217/epi-2017-0125 |
| format | Article |
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Based on the preliminary results of the histone modification and conservation profiles, we conducted reporter assays on the
and
domain iHMRs. The
results were confirmed by the
deletion of
-iHMR designed to test its function in the
imprinted domain.
Initial bioinformatic analyses suggested that some iHMRs may be noncanonical enhancers for imprinted genes. Consistent with this,
- and
-iHMRs showed context-dependent promoter and enhancer activity. Further, deletion of
-iHMR resulted in allele- and sex-specific misregulation of several imprinted genes within the domain. Taken together, these results suggest that some iHMRs may function as domain-wide regulators for the associated imprinted domains.</description><identifier>ISSN: 1750-1911</identifier><identifier>EISSN: 1750-192X</identifier><identifier>DOI: 10.2217/epi-2017-0125</identifier><identifier>PMID: 29569934</identifier><language>eng</language><publisher>England: Future Medicine Ltd</publisher><subject>Animals ; Cancer ; Cats ; Cattle ; Deoxyribonucleic acid ; DNA ; DNA Methylation ; DNA, Intergenic ; Domains ; Enhancer Elements, Genetic ; Enhancers ; Epigenetics ; Evolution ; Female ; Gene deletion ; Gene expression ; Genes ; Genomes ; Genomic Imprinting ; Genomics ; Histone Code ; Humans ; iHMR ; imprinted domains ; imprinted gene regulation ; imprinted genes ; imprinting ; In vivo methods and tests ; intergenic hypomethylated region ; Introns ; Male ; Mammals ; Mice ; Neoplasms - genetics ; Peg3 protein ; Regulators ; RNA polymerase ; RNA, Long Noncoding - genetics ; Sex Factors ; Stem cells ; Transcription factors</subject><ispartof>Epigenomics, 2018-04, Vol.10 (4), p.445-461</ispartof><rights>2018 Future Medicine Ltd</rights><rights>Copyright Future Medicine Ltd Apr 2018</rights><rights>2018 Future Medicine Ltd 2018</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c465t-c9cf0c1e0b80199ed222d4c94f0ae6bcf901ce9de812b6155927721f065c04e53</citedby><cites>FETCH-LOGICAL-c465t-c9cf0c1e0b80199ed222d4c94f0ae6bcf901ce9de812b6155927721f065c04e53</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5925440/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5925440/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,723,776,780,881,27901,27902,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29569934$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bakshi, Arundhati</creatorcontrib><creatorcontrib>Bretz, Corey L</creatorcontrib><creatorcontrib>Cain, Terri L</creatorcontrib><creatorcontrib>Kim, Joomyeong</creatorcontrib><title>Intergenic and intronic DNA hypomethylated regions as putative regulators of imprinted domains</title><title>Epigenomics</title><addtitle>Epigenomics</addtitle><description>To investigate the regulatory potential of intergenic/intronic hypomethylated regions (iHMRs) within imprinted domains.
Based on the preliminary results of the histone modification and conservation profiles, we conducted reporter assays on the
and
domain iHMRs. The
results were confirmed by the
deletion of
-iHMR designed to test its function in the
imprinted domain.
Initial bioinformatic analyses suggested that some iHMRs may be noncanonical enhancers for imprinted genes. Consistent with this,
- and
-iHMRs showed context-dependent promoter and enhancer activity. Further, deletion of
-iHMR resulted in allele- and sex-specific misregulation of several imprinted genes within the domain. Taken together, these results suggest that some iHMRs may function as domain-wide regulators for the associated imprinted domains.</description><subject>Animals</subject><subject>Cancer</subject><subject>Cats</subject><subject>Cattle</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA Methylation</subject><subject>DNA, Intergenic</subject><subject>Domains</subject><subject>Enhancer Elements, Genetic</subject><subject>Enhancers</subject><subject>Epigenetics</subject><subject>Evolution</subject><subject>Female</subject><subject>Gene deletion</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genomes</subject><subject>Genomic Imprinting</subject><subject>Genomics</subject><subject>Histone Code</subject><subject>Humans</subject><subject>iHMR</subject><subject>imprinted domains</subject><subject>imprinted gene regulation</subject><subject>imprinted genes</subject><subject>imprinting</subject><subject>In vivo methods and tests</subject><subject>intergenic hypomethylated region</subject><subject>Introns</subject><subject>Male</subject><subject>Mammals</subject><subject>Mice</subject><subject>Neoplasms - genetics</subject><subject>Peg3 protein</subject><subject>Regulators</subject><subject>RNA polymerase</subject><subject>RNA, Long Noncoding - genetics</subject><subject>Sex Factors</subject><subject>Stem cells</subject><subject>Transcription factors</subject><issn>1750-1911</issn><issn>1750-192X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNp1kU1r3DAQQEVpSUKaY67FkEsvbjVay15dCiH9CoTkkkBOFVp5vKtgS44kB_bfZ8ymSxuILtJonh4zGsZOgX8RApqvOLpScGhKDkK-Y0fQSF6CEvfv92eAQ3aS0gOntRBLVcMBOxRK1kotqiP259JnjGv0zhbGt4XzOYY5-H59Xmy2Yxgwb7a9ydgWEdcu-FSYVIxTNtk94Xw3UTbEVISucMMYyUBsGwbjfPrIPnSmT3jysh-zu58_bi9-l1c3vy4vzq9KW9Uyl1bZjltAvlpyUApbIURbWVV13GC9sp3iYFG1uASxqkFKJZpGQMdraXmFcnHMvu2847QasLVIbZheUzWDiVsdjNP_Z7zb6HV40mSSVcVJ8PlFEMPjhCnrwSWLfW88hilp-mUqTQoJhJ69Qh_CFD21p2kotRTNcjELyx1lY0gpYrcvBvjMNZqGN2sbPQ-P-E__drCn_46KALUDuilPEZN16C3qXUQvnHUe35A_A1vrqlw</recordid><startdate>20180401</startdate><enddate>20180401</enddate><creator>Bakshi, Arundhati</creator><creator>Bretz, Corey L</creator><creator>Cain, Terri L</creator><creator>Kim, Joomyeong</creator><general>Future Medicine Ltd</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>EHMNL</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P5Z</scope><scope>P62</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20180401</creationdate><title>Intergenic and intronic DNA hypomethylated regions as putative regulators of imprinted domains</title><author>Bakshi, Arundhati ; Bretz, Corey L ; Cain, Terri L ; Kim, Joomyeong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c465t-c9cf0c1e0b80199ed222d4c94f0ae6bcf901ce9de812b6155927721f065c04e53</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Animals</topic><topic>Cancer</topic><topic>Cats</topic><topic>Cattle</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA Methylation</topic><topic>DNA, Intergenic</topic><topic>Domains</topic><topic>Enhancer Elements, Genetic</topic><topic>Enhancers</topic><topic>Epigenetics</topic><topic>Evolution</topic><topic>Female</topic><topic>Gene deletion</topic><topic>Gene expression</topic><topic>Genes</topic><topic>Genomes</topic><topic>Genomic Imprinting</topic><topic>Genomics</topic><topic>Histone Code</topic><topic>Humans</topic><topic>iHMR</topic><topic>imprinted domains</topic><topic>imprinted gene regulation</topic><topic>imprinted genes</topic><topic>imprinting</topic><topic>In vivo methods and tests</topic><topic>intergenic hypomethylated region</topic><topic>Introns</topic><topic>Male</topic><topic>Mammals</topic><topic>Mice</topic><topic>Neoplasms - genetics</topic><topic>Peg3 protein</topic><topic>Regulators</topic><topic>RNA polymerase</topic><topic>RNA, Long Noncoding - genetics</topic><topic>Sex Factors</topic><topic>Stem cells</topic><topic>Transcription factors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bakshi, Arundhati</creatorcontrib><creatorcontrib>Bretz, Corey L</creatorcontrib><creatorcontrib>Cain, Terri L</creatorcontrib><creatorcontrib>Kim, Joomyeong</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection (ProQuest)</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>UK & Ireland Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Advanced Technologies & Aerospace Database</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Epigenomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bakshi, Arundhati</au><au>Bretz, Corey L</au><au>Cain, Terri L</au><au>Kim, Joomyeong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Intergenic and intronic DNA hypomethylated regions as putative regulators of imprinted domains</atitle><jtitle>Epigenomics</jtitle><addtitle>Epigenomics</addtitle><date>2018-04-01</date><risdate>2018</risdate><volume>10</volume><issue>4</issue><spage>445</spage><epage>461</epage><pages>445-461</pages><issn>1750-1911</issn><eissn>1750-192X</eissn><abstract>To investigate the regulatory potential of intergenic/intronic hypomethylated regions (iHMRs) within imprinted domains.
Based on the preliminary results of the histone modification and conservation profiles, we conducted reporter assays on the
and
domain iHMRs. The
results were confirmed by the
deletion of
-iHMR designed to test its function in the
imprinted domain.
Initial bioinformatic analyses suggested that some iHMRs may be noncanonical enhancers for imprinted genes. Consistent with this,
- and
-iHMRs showed context-dependent promoter and enhancer activity. Further, deletion of
-iHMR resulted in allele- and sex-specific misregulation of several imprinted genes within the domain. Taken together, these results suggest that some iHMRs may function as domain-wide regulators for the associated imprinted domains.</abstract><cop>England</cop><pub>Future Medicine Ltd</pub><pmid>29569934</pmid><doi>10.2217/epi-2017-0125</doi><tpages>17</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Epigenomics, 2018-04, Vol.10 (4), p.445-461 |
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| language | eng |
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| subjects | Animals Cancer Cats Cattle Deoxyribonucleic acid DNA DNA Methylation DNA, Intergenic Domains Enhancer Elements, Genetic Enhancers Epigenetics Evolution Female Gene deletion Gene expression Genes Genomes Genomic Imprinting Genomics Histone Code Humans iHMR imprinted domains imprinted gene regulation imprinted genes imprinting In vivo methods and tests intergenic hypomethylated region Introns Male Mammals Mice Neoplasms - genetics Peg3 protein Regulators RNA polymerase RNA, Long Noncoding - genetics Sex Factors Stem cells Transcription factors |
| title | Intergenic and intronic DNA hypomethylated regions as putative regulators of imprinted domains |
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