- Combined and differential roles of ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse germ cells
N Kubo, R Uehara, S Uemura, H Ohishi, K Shirane, H Sasaki
Nature Communications, 15(1):3266, 2024
[PubMed] [Journal] - H3K4me1 facilitates promoter-enhancer interactions and gene activation during embryonic stem cell differentiation
N Kubo, P B Chen, R Hu, Z Ye, H Sasaki, B Ren
Molecular Cell, 84(9):1742-1752.e5, 2024
[PubMed] [Journal] - The DNMT3A ADD domain is required for efficient de novo DNA methylation and maternal imprinting in mouse oocytes
R Uehara, W K Au Yeung, K Toriyama, H Ohishi, N Kubo, H Toh, I Suetake, K Shirane, H Sasaki
PLOS Genetics, 19(8) e1010855-e1010855, 2023
[PubMed] [Journal] - Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation.
P 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
Cell Reports, 8;41(6):111630, 2022
[PubMed] [Journal] - MUNIn: A statistical framework for identifying long-range chromatin interactions from multiple samples
W Liu, A Abnousi, Q Zhang, N Kubo, J S Martin Beem, Y Li, M Hu, Y Yang
Human Genetics and Genomics Advances, 2(3) 100036-100036, 2021
[PubMed] [Journal] - An Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum
Y 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
Nature, 598(7879) 129-136, 2021
[PubMed] [Journal] - Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation.
N 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
Nature structural & molecular biology, 28(2) 152-161, 2021
[PubMed] [Journal] - Paired genetic analysis by next-generation sequencing of lung cancer and associated idiopathic pulmonary fibrosis.
K Otsubo, E Iwama, K Ijichi, N Kubo, Y Yoneshima, H Inoue, K Tanaka, A Osoegawa, T Tagawa, Y Nakanishi, I Okamoto
Cancer science, 111(7) 2482-2487, 2020
[PubMed] [Journal] - CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention.
E M Pugacheva, N Kubo, D Loukinov, M Tajmul, S Kang, A L Kovalchuk, A V Strunnikov, G E Zentner, B Ren, V V Lobanenkov
Proceedings of the National Academy of Sciences of the United States of America, 117(4) 2020-2031 2020
[PubMed] [Journal] - Joint profiling of DNA methylation and chromatin architecture in single cells.
G Li, Y Liu, Y Zhang, N Kubo, M Yu, R Fang, M Kellis, B Ren
Nature methods, 16(10) 991-993, 2019
[PubMed] [Journal] - Identification of Genomic Alterations Acquired During Treatment With EGFR-TKIs in Non-small Cell Lung Cancer.
N Kubo, T Harada, Y Shiraishi, K Nosaki, N Nakagaki, M Takeshita, H Ouchi, E Iwama, K Tanaka, I Okamoto, H Sasaki, Y Nakanishi
Anticancer research, 39(2) 671-677, 2019
[PubMed] [Journal] - Intrinsic and Extrinsic Regulation of PD-L2 Expression in Oncogene-Driven Non-Small Cell Lung Cancer.
D Shibahara, K Tanaka, E Iwama, N Kubo, K Ota, K Azuma, T Harada, J Fujita, Y Nakanishi, I Okamoto
Journal of thoracic oncology, 13(7) 926-937, 2018
[PubMed] [Journal] - Polycomb protein SCML2 facilitates H3K27me3 to establish bivalent domains in the male germline.
S Maezawa, K Hasegawa, M Yukawa, N Kubo, A Sakashita, K G Alavattam, H Sin, A V Kartashov, H Sasaki, A Barski, S H Namekawa
Proceedings of the National Academy of Sciences of the United States of America, 115(19) 4957-4962, 2018
[PubMed] [Journal] - Most T790M mutations are present on the same EGFR allele as activating mutations in patients with non-small cell lung cancer.
N Hidaka, E Iwama, N Kubo, T Harada, K Miyawaki, K Tanaka, I Okamoto, E Baba, K Akashi, H Sasaki, Y Nakanishi
Lung cancer, 108 75-82, 2017
[PubMed] [Journal] - Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing.
H Toh, K Shirane, F Miura, N Kubo, K Ichiyanagi, K Hayashi, M Saitou, M Suyama, T Ito, H Sasaki
BMC genomics, 18(1) 31, 2017
[PubMed] [Journal] - DNA methylation and gene expression dynamics during spermatogonial stem cell differentiation in the early postnatal mouse testis.
N 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
BMC genomics, 16(1) 624, 2015
[PubMed] [Journal] - Interstitial pneumonia during bevacizumab-based chemotherapy for colorectal cancer.
S Tamura, H Kusaba, N Kubo, K Ijichi, K Tsuchihashi, M Komoda, K Uchino, H Ariyama, K Akashi, E Baba
Medical oncology, 31(3) 856, 2014
[PubMed] [Journal] - Carboplatin plus paclitaxel in the successful treatment of advanced inflammatory myofibroblastic tumor.
N Kubo, T Harada, S Anai, K Otsubo, Y Yoneshima, K Ijichi, T Koga, K Takayama, Y Nakanishi
Internal medicine, 51(17) 2399-2401, 2012
[PubMed] [Journal] - A juvenile case of pulmonary lymphangitic carcinomatosis caused by sigmoid colon cancer with a component of micropapillary carcinoma.
K Otsubo, N Kubo, N Nakashima, M Izumi, M Nakamori, H Koto
Internal medicine, 50(20) 2361-5, 2011
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