3D genome organization contributes to genome instability at fragile sites
Sarni, Dan, Sasaki, Takayo, Irony Tur-Sinai, Michal, Miron, Karin, Rivera-Mulia, Juan Carlos, Magnuson, Brian, Ljungman, Mats, Gilbert, David M, Kerem, Batsheva
Published in Nature communications (17.07.2020)
Published in Nature communications (17.07.2020)
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Integrative detection and analysis of structural variation in cancer genomes
Dixon, Jesse R, Xu, Jie, Dileep, Vishnu, Zhan, Ye, Song, Fan, Le, Victoria T, Yardımcı, Galip Gürkan, Chakraborty, Abhijit, Bann, Darrin V, Wang, Yanli, Clark, Royden, Zhang, Lijun, Yang, Hongbo, Liu, Tingting, Iyyanki, Sriranga, An, Lin, Pool, Christopher, Sasaki, Takayo, Rivera-Mulia, Juan Carlos, Ozadam, Hakan, Lajoie, Bryan R, Kaul, Rajinder, Buckley, Michael, Lee, Kristen, Diegel, Morgan, Pezic, Dubravka, Ernst, Christina, Hadjur, Suzana, Odom, Duncan T, Stamatoyannopoulos, John A, Broach, James R, Hardison, Ross C, Ay, Ferhat, Noble, William Stafford, Dekker, Job, Gilbert, David M, Yue, Feng
Published in Nature genetics (01.10.2018)
Published in Nature genetics (01.10.2018)
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Replication timing maintains the global epigenetic state in human cells
Klein, Kyle N, Zhao, Peiyao A, Lyu, Xiaowen, Sasaki, Takayo, Bartlett, Daniel A, Singh, Amar M, Tasan, Ipek, Zhang, Meng, Watts, Lotte P, Hiraga, Shin-Ichiro, Natsume, Toyoaki, Zhou, Xuemeng, Baslan, Timour, Leung, Danny, Kanemaki, Masato T, Donaldson, Anne D, Zhao, Huimin, Dalton, Stephen, Corces, Victor G, Gilbert, David M
Published in Science (American Association for the Advancement of Science) (23.04.2021)
Published in Science (American Association for the Advancement of Science) (23.04.2021)
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An integrative ENCODE resource for cancer genomics
Zhang, Jing, Lee, Donghoon, Dhiman, Vineet, Jiang, Peng, Xu, Jie, McGillivray, Patrick, Yang, Hongbo, Liu, Jason, Meyerson, William, Clarke, Declan, Gu, Mengting, Li, Shantao, Lou, Shaoke, Xu, Jinrui, Lochovsky, Lucas, Ung, Matthew, Ma, Lijia, Yu, Shan, Cao, Qin, Harmanci, Arif, Yan, Koon-Kiu, Sethi, Anurag, Gürsoy, Gamze, Schoenberg, Michael Rutenberg, Rozowsky, Joel, Warrell, Jonathan, Emani, Prashant, Yang, Yucheng T, Galeev, Timur, Kong, Xiangmeng, Liu, Shuang, Li, Xiaotong, Krishnan, Jayanth, Feng, Yanlin, Rivera-Mulia, Juan Carlos, Adrian, Jessica, Broach, James R, Bolt, Michael, Moran, Jennifer, Fitzgerald, Dominic, Dileep, Vishnu, Liu, Tingting, Mei, Shenglin, Sasaki, Takayo, Trevilla-Garcia, Claudia, Wang, Su, Wang, Yanli, Zang, Chongzhi, Wang, Daifeng, Klein, Robert J, Snyder, Michael, Gilbert, David M, Yip, Kevin, Cheng, Chao, Yue, Feng, Liu, X Shirley, White, Kevin P, Gerstein, Mark
Published in Nature communications (29.07.2020)
Published in Nature communications (29.07.2020)
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SPIN reveals genome-wide landscape of nuclear compartmentalization
Wang, Yuchuan, Zhang, Yang, Zhang, Ruochi, van Schaik, Tom, Zhang, Liguo, Sasaki, Takayo, Peric-Hupkes, Daniel, Chen, Yu, Gilbert, David M, van Steensel, Bas, Belmont, Andrew S, Ma, Jian
Published in Genome Biology (14.01.2021)
Published in Genome Biology (14.01.2021)
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Cohesin-mediated loop anchors confine the locations of human replication origins
Emerson, Daniel J, Zhao, Peiyao A, Cook, Ashley L, Barnett, R Jordan, Klein, Kyle N, Saulebekova, Dalila, Ge, Chunmin, Zhou, Linda, Simandi, Zoltan, Minsk, Miriam K, Titus, Katelyn R, Wang, Weitao, Gong, Wanfeng, Zhang, Di, Yang, Liyan, Venev, Sergey V, Gibcus, Johan H, Yang, Hongbo, Sasaki, Takayo, Kanemaki, Masato T, Yue, Feng, Dekker, Job, Chen, Chun-Long, Gilbert, David M, Phillips-Cremins, Jennifer E
Published in Nature (London) (23.06.2022)
Published in Nature (London) (23.06.2022)
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Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells
Rivera-Mulia, Juan Carlos, Buckley, Quinton, Sasaki, Takayo, Zimmerman, Jared, Didier, Ruth A, Nazor, Kristopher, Loring, Jeanne F, Lian, Zheng, Weissman, Sherman, Robins, Allan J, Schulz, Thomas C, Menendez, Laura, Kulik, Michael J, Dalton, Stephen, Gabr, Haitham, Kahveci, Tamer, Gilbert, David M
Published in Genome research (01.08.2015)
Published in Genome research (01.08.2015)
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Journal Article
Allele-specific control of replication timing and genome organization during development
Rivera-Mulia, Juan Carlos, Dimond, Andrew, Vera, Daniel, Trevilla-Garcia, Claudia, Sasaki, Takayo, Zimmerman, Jared, Dupont, Catherine, Gribnau, Joost, Fraser, Peter, Gilbert, David M
Published in Genome research (01.06.2018)
Published in Genome research (01.06.2018)
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Sodium intake and its source assessed using weighed food records in rural eastern Rwanda
Nagao-Sato, Sayaka, Sudo, Noriko, Yanagisawa, Ayumi, Amitani, Yukiko, Caballero, Yuko, Sekiyama, Makiko, Sentozi, Ananias, Matsuoka, Takuya, Imanishi, Hiroaki, Sasaki, Takayo, Matsuda, Hirotaka
Published in Journal of human hypertension (01.06.2021)
Published in Journal of human hypertension (01.06.2021)
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Replication timing: a fingerprint for cell identity and pluripotency
Ryba, Tyrone, Hiratani, Ichiro, Sasaki, Takayo, Battaglia, Dana, Kulik, Michael, Zhang, Jinfeng, Dalton, Stephen, Gilbert, David M
Published in PLoS computational biology (01.10.2011)
Published in PLoS computational biology (01.10.2011)
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Highly stable loading of Mcm proteins onto chromatin in living cells requires replication to unload
Kuipers, Marjorie A, Stasevich, Timothy J, Sasaki, Takayo, Wilson, Korey A, Hazelwood, Kristin L, McNally, James G, Davidson, Michael W, Gilbert, David M
Published in The Journal of cell biology (10.01.2011)
Published in The Journal of cell biology (10.01.2011)
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Nucleolus and centromere Tyramide Signal Amplification-Seq reveals variable localization of heterochromatin in different cell types
Kumar, Pradeep, Gholamalamdari, Omid, Zhang, Yang, Zhang, Liguo, Vertii, Anastassiia, van Schaik, Tom, Peric-Hupkes, Daan, Sasaki, Takayo, Gilbert, David M, van Steensel, Bas, Ma, Jian, Kaufman, Paul D, Belmont, Andrew S
Published in Communications biology (13.09.2024)
Published in Communications biology (13.09.2024)
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Pre-replication complex proteins assemble at regions of low nucleosome occupancy within the Chinese hamster dihydrofolate reductase initiation zone
Lubelsky, Yoav, Sasaki, Takayo, Kuipers, Marjorie A, Lucas, Isabelle, Le Beau, Michelle M, Carignon, Sandra, Debatisse, Michelle, Prinz, Joseph A, Dennis, Jonathan H, Gilbert, David M
Published in Nucleic acids research (01.04.2011)
Published in Nucleic acids research (01.04.2011)
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The distribution of genomic variations in human iPSCs is related to replication-timing reorganization during reprogramming
Lu, Junjie, Li, Hu, Hu, Ming, Sasaki, Takayo, Baccei, Anna, Gilbert, David M, Liu, Jun S, Collins, James J, Lerou, Paul H
Published in Cell reports (Cambridge) (01.04.2014)
Published in Cell reports (Cambridge) (01.04.2014)
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Replication timing alterations in leukemia affect clinically relevant chromosome domains
Rivera-Mulia, Juan Carlos, Sasaki, Takayo, Trevilla-Garcia, Claudia, Nakamichi, Naoto, Knapp, David J. H.F., Hammond, Colin A., Chang, Bill H., Tyner, Jeffrey W., Devidas, Meenakshi, Zimmerman, Jared, Klein, Kyle N., Somasundaram, Vivek, Druker, Brian J., Gruber, Tanja A., Koren, Amnon, Eaves, Connie J., Gilbert, David M.
Published in Blood advances (12.11.2019)
Published in Blood advances (12.11.2019)
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Development and Validation of a Data-Based Food Frequency Questionnaire for Adults in Eastern Rural Area of Rwanda
Yanagisawa, Ayumi, Sudo, Noriko, Amitani, Yukiko, Caballero, Yuko, Sekiyama, Makiko, Mukamugema, Christine, Matsuoka, Takuya, Imanishi, Hiroaki, Sasaki, Takayo, Matsuda, Hirotaka
Published in Nutrition and Metabolic Insights (01.01.2016)
Published in Nutrition and Metabolic Insights (01.01.2016)
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Journal Article
Murine esBAF chromatin remodeling complex subunits BAF250a and Brg1 are necessary to maintain and reprogram pluripotency-specific replication timing of select replication domains
Takebayashi, Shin-Ichiro, Lei, Ienglam, Ryba, Tyrone, Sasaki, Takayo, Dileep, Vishnu, Battaglia, Dana, Gao, Xiaolin, Fang, Peng, Fan, Yong, Esteban, Miguel A, Tang, Jiong, Crabtree, Gerald R, Wang, Zhong, Gilbert, David M
Published in Epigenetics & chromatin (13.12.2013)
Published in Epigenetics & chromatin (13.12.2013)
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Journal Article
The Chinese Hamster Dihydrofolate Reductase Replication Origin Decision Point Follows Activation of Transcription and Suppresses Initiation of Replication within Transcription Units
Sasaki, Takayo, Ramanathan, Sunita, Okuno, Yukiko, Kumagai, Chiharu, Shaikh, Seemab S., Gilbert, David M.
Published in Molecular and Cellular Biology (01.02.2006)
Published in Molecular and Cellular Biology (01.02.2006)
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