{"id":666,"date":"2024-11-07T09:17:22","date_gmt":"2024-11-07T00:17:22","guid":{"rendered":"http:\/\/tet.brc.riken.jp\/ja\/?page_id=666"},"modified":"2024-11-07T10:03:46","modified_gmt":"2024-11-07T01:03:46","slug":"publication","status":"publish","type":"page","link":"http:\/\/tet.brc.riken.jp\/ja\/publication\/","title":{"rendered":"\u696d\u7e3e"},"content":{"rendered":"<div id=\"pl-666\"  class=\"panel-layout\" ><div id=\"pg-666-0\"  class=\"panel-grid panel-no-style\" ><div id=\"pgc-666-0-0\"  class=\"panel-grid-cell\" ><div id=\"panel-666-0-0-0\" class=\"so-panel widget widget_sow-editor panel-first-child panel-last-child\" data-index=\"0\" ><div class=\"c-publication panel-widget-style panel-widget-style-for-666-0-0-0\" id=\"publication\" ><div\n\t\t\t\n\t\t\tclass=\"so-widget-sow-editor so-widget-sow-editor-base\"\n\t\t\t\n\t\t>\n<div class=\"siteorigin-widget-tinymce textwidget\">\n\t<ul>\n<li>\tCombined and differential roles of ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse germ cells<br \/>\n\tN Kubo, R Uehara, S Uemura, H Ohishi, K Shirane, H Sasaki<br \/>\n\tNature Communications, 15(1):3266, 2024<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/38627502\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1038\/s41467-024-47699-2\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tH3K4me1 facilitates promoter-enhancer interactions and gene activation during embryonic stem cell differentiation<br \/>\n\tN Kubo, P B Chen, R Hu, Z Ye, H Sasaki, B Ren<br \/>\n\tMolecular Cell, 84(9):1742-1752.e5, 2024<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/38513661\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1016\/j.molcel.2024.02.030\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tThe DNMT3A ADD domain is required for efficient de novo DNA methylation and maternal imprinting in mouse oocytes<br \/>\n\tR Uehara, W K Au Yeung, K Toriyama, H Ohishi, N Kubo, H Toh, I Suetake, K Shirane, H Sasaki<br \/>\n\tPLOS Genetics, 19(8) e1010855-e1010855, 2023<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/37527244\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1371\/journal.pgen.1010855\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tSystematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation.<br \/>\n\tP B Chen, P C Fiaux, K Zhang, B Li, N Kubo, S Jiang, R Hu, E Rooholfada, S Wu, M Wang, W Wang, G McVicker, P S Mischel, B Ren<br \/>\n\tCell Reports, 8;41(6):111630, 2022<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/36351387\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1016\/j.celrep.2022.111630\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tMUNIn: A statistical framework for identifying long-range chromatin interactions from multiple samples<br \/>\n\tW Liu, A Abnousi, Q Zhang, N Kubo, J S Martin Beem, Y Li, M Hu, Y Yang<br \/>\n\tHuman Genetics and Genomics Advances, 2(3) 100036-100036, 2021<br \/>\n\t[<a href=\"https:\/\/pmc.ncbi.nlm.nih.gov\/articles\/PMC8415461\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1016\/j.xhgg.2021.100036\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tAn Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum<br \/>\n\tY E Li, S Preissl, X Hou, Z Zhang, K Zhang, Y Qiu, O Poirion, B Li, J Chiou, H Liu, A Pinto-Duarte, N Kubo, X Yang, R Fang, X Wang, J Y Han, J Lucero, Y Yan, S Kuan, D Gorkin, K J Gaulton, Y Shen, M Nunn, E A Mukamel, M M Behrens, J R Ecker, B Ren<br \/>\n\tNature, 598(7879) 129-136, 2021<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/34616068\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1038\/s41586-021-03604-1\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tPromoter-proximal CTCF binding promotes distal enhancer-dependent gene activation.<br \/>\n\tN Kubo, H Ishii, X Xiong, S Bianco, F Meitinger, R Hu, J D Hocker, M Conte, D Gorkin, M Yu, B Li, J R Dixon, M Hu, M Nicodemi, H Zhao, B Ren<br \/>\n\tNature structural & molecular biology, 28(2) 152-161, 2021<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/33398174\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1038\/s41594-020-00539-5\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tPaired genetic analysis by next-generation sequencing of lung cancer and associated idiopathic pulmonary fibrosis.<br \/>\n\tK Otsubo, E Iwama, K Ijichi, N Kubo, Y Yoneshima, H Inoue, K Tanaka, A Osoegawa, T Tagawa, Y Nakanishi, I Okamoto<br \/>\n\tCancer science, 111(7) 2482-2487, 2020<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/32426915\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1111\/cas.14488\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tCTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention.<br \/>\n\tE M Pugacheva, N Kubo, D Loukinov, M Tajmul, S Kang, A L Kovalchuk, A V Strunnikov, G E Zentner, B Ren, V V Lobanenkov<br \/>\n\tProceedings of the National Academy of Sciences of the United States of America, 117(4) 2020-2031 2020<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/31937660\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1073\/pnas.1911708117\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tJoint profiling of DNA methylation and chromatin architecture in single cells.<br \/>\n\tG Li, Y Liu, Y Zhang, N Kubo, M Yu, R Fang, M Kellis, B Ren<br \/>\n\tNature methods, 16(10) 991-993, 2019<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/31384045\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1038\/s41592-019-0502-z\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tIdentification of Genomic Alterations Acquired During Treatment With EGFR-TKIs in Non-small Cell Lung Cancer.<br \/>\n\tN Kubo, T Harada, Y Shiraishi, K Nosaki, N Nakagaki, M Takeshita, H Ouchi, E Iwama, K Tanaka, I Okamoto, H Sasaki, Y Nakanishi<br \/>\n\tAnticancer research, 39(2) 671-677, 2019<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/30711944\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.21873\/anticanres.13162\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tIntrinsic and Extrinsic Regulation of PD-L2 Expression in Oncogene-Driven Non-Small Cell Lung Cancer.<br \/>\n\tD Shibahara, K Tanaka, E Iwama, N Kubo, K Ota, K Azuma, T Harada, J Fujita, Y Nakanishi, I Okamoto<br \/>\n\tJournal of thoracic oncology, 13(7) 926-937, 2018<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/29596910\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1016\/j.jtho.2018.03.012\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tPolycomb protein SCML2 facilitates H3K27me3 to establish bivalent domains in the male germline.<br \/>\n\tS Maezawa, K Hasegawa, M Yukawa, N Kubo, A Sakashita, K G Alavattam, H Sin, A V Kartashov, H Sasaki, A Barski, S H Namekawa<br \/>\n\tProceedings of the National Academy of Sciences of the United States of America, 115(19) 4957-4962, 2018<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/29686098\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1073\/pnas.1804512115\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tMost T790M mutations are present on the same EGFR allele as activating mutations in patients with non-small cell lung cancer.<br \/>\n\tN Hidaka, E Iwama, N Kubo, T Harada, K Miyawaki, K Tanaka, I Okamoto, E Baba, K Akashi, H Sasaki, Y Nakanishi<br \/>\n\tLung cancer, 108 75-82, 2017<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/28625653\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1016\/j.lungcan.2017.02.019\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tSoftware updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing.<br \/>\n\tH Toh, K Shirane, F Miura, N Kubo, K Ichiyanagi, K Hayashi, M Saitou, M Suyama, T Ito, H Sasaki<br \/>\n\tBMC genomics, 18(1) 31, 2017<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/28056787\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1186\/s12864-016-3392-9\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tDNA methylation and gene expression dynamics during spermatogonial stem cell differentiation in the early postnatal mouse testis.<br \/>\n\tN Kubo, H Toh, K Shirane, T Shirakawa, H Kobayashi, T Sato, H Sone, Y Sato, S Tomizawa, Y Tsurusaki, H Shibata, H Saitsu, Y Suzuki, N Matsumoto, M Suyama, T Kono, K Ohbo, H Sasaki<br \/>\n\tBMC genomics, 16(1) 624, 2015<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/26290333\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1186\/s12864-015-1833-5\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tInterstitial pneumonia during bevacizumab-based chemotherapy for colorectal cancer.<br \/>\n\tS Tamura, H Kusaba, N Kubo, K Ijichi, K Tsuchihashi, M Komoda, K Uchino, H Ariyama, K Akashi, E Baba<br \/>\n\tMedical oncology, 31(3) 856, 2014<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/24477650\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.1007\/s12032-014-0856-0\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tCarboplatin plus paclitaxel in the successful treatment of advanced inflammatory myofibroblastic tumor.<br \/>\n\tN Kubo, T Harada, S Anai, K Otsubo, Y Yoneshima, K Ijichi, T Koga, K Takayama, Y Nakanishi<br \/>\n\tInternal medicine, 51(17) 2399-2401, 2012<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/22975556\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.2169\/internalmedicine.51.7599\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<li>\tA juvenile case of pulmonary lymphangitic carcinomatosis caused by sigmoid colon cancer with a component of micropapillary carcinoma.<br \/>\n\tK Otsubo, N Kubo, N Nakashima, M Izumi, M Nakamori, H Koto<br \/>\n\tInternal medicine, 50(20) 2361-5, 2011<br \/>\n\t[<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/22001466\/\" target=\"_blank\" rel=\"noopener\">PubMed<\/a>]  [<a href=\"https:\/\/doi.org\/10.2169\/internalmedicine.50.5170\" target=\"_blank\" rel=\"noopener\">Journal<\/a>]\n<\/li>\n<\/ul>\n<\/div>\n<\/div><\/div><\/div><\/div><\/div><\/div>","protected":false},"excerpt":{"rendered":"<p>Combined and differential roles of ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse ger&#8230;<\/p>\n<div class=\"more-link-wrapper\"><a class=\"more-link\" href=\"http:\/\/tet.brc.riken.jp\/ja\/publication\/\"><span class=\"more-text\">\u7d9a\u304d\u3092\u8aad\u3080<\/span><\/a><\/div>\n","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_seopress_titles_title":"","_seopress_titles_desc":"","_seopress_robots_index":"","_seopress_robots_follow":"","_seopress_robots_imageindex":"","_seopress_robots_snippet":"","_seopress_robots_primary_cat":"","_seopress_robots_breadcrumbs":"","_seopress_robots_freeze_modified_date":"","_seopress_robots_custom_modified_date":"","_seopress_robots_canonical":"","_seopress_social_fb_title":"","_seopress_social_fb_desc":"","_seopress_social_fb_img":"","_seopress_social_fb_img_attachment_id":0,"_seopress_social_fb_img_width":0,"_seopress_social_fb_img_height":0,"_seopress_social_twitter_title":"","_seopress_social_twitter_desc":"","_seopress_social_twitter_img":"","_seopress_social_twitter_img_attachment_id":0,"_seopress_social_twitter_img_width":0,"_seopress_social_twitter_img_height":0,"_seopress_redirections_value":"","_seopress_redirections_enabled":"","_seopress_redirections_enabled_regex":"","_seopress_redirections_logged_status":"both","_seopress_redirections_param":"","_seopress_redirections_type":301,"_seopress_analysis_target_kw":"","footnotes":"","_wp_rev_ctl_limit":""},"class_list":["post-666","page","type-page","status-publish","hentry","post"],"_links":{"self":[{"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/pages\/666","targetHints":{"allow":["GET"]}}],"collection":[{"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/comments?post=666"}],"version-history":[{"count":1,"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/pages\/666\/revisions"}],"predecessor-version":[{"id":688,"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/pages\/666\/revisions\/688"}],"wp:attachment":[{"href":"http:\/\/tet.brc.riken.jp\/ja\/wp-json\/wp\/v2\/media?parent=666"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}