Dynamic DNA methylation: In the right place at the right time von Luo, Chongyuan, Hajkova, Petra, Ecker, Joseph R

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Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain von Mo, Alisa, Mukamel, Eran A., Davis, Fred P., Luo, Chongyuan, Henry, Gilbert L., Picard, Serge, Urich, Mark A., Nery, Joseph R., Sejnowski, Terrence J., Lister, Ryan, Eddy, Sean R., Ecker, Joseph R., Nathans, Jeremy

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Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape von O’Malley, Ronan C., Huang, Shao-shan Carol, Song, Liang, Lewsey, Mathew G., Bartlett, Anna, Nery, Joseph R., Galli, Mary, Gallavotti, Andrea, Ecker, Joseph R.

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Integration of omic networks in a developmental atlas of maize von Walley, Justin W., Sartor, Ryan C., Shen, Zhouxin, Schmitz, Robert J., Wu, Kevin J., Urich, Mark A., Nery, Joseph R., Smith, Laurie G., Schnable, James C., Ecker, Joseph R., Briggs, Steven P.

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Non-CG Methylation in the Human Genome von He, Yupeng, Ecker, Joseph R

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Common alleles of CMT2 and NRPE1 are major determinants of CHH methylation variation in Arabidopsis thaliana von Sasaki, Eriko, Kawakatsu, Taiji, Ecker, Joseph R, Nordborg, Magnus

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Dynamic DNA methylation reconfiguration during seed development and germination von Kawakatsu, Taiji, Nery, Joseph R, Castanon, Rosa, Ecker, Joseph R

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Molecular Criteria for Defining the Naive Human Pluripotent State von Theunissen, Thorold W., Friedli, Marc, He, Yupeng, Planet, Evarist, O’Neil, Ryan C., Markoulaki, Styliani, Pontis, Julien, Wang, Haoyi, Iouranova, Alexandra, Imbeault, Michaël, Duc, Julien, Cohen, Malkiel A., Wert, Katherine J., Castanon, Rosa, Zhang, Zhuzhu, Huang, Yanmei, Nery, Joseph R., Drotar, Jesse, Lungjangwa, Tenzin, Trono, Didier, Ecker, Joseph R., Jaenisch, Rudolf

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The BRAIN Initiative Cell Census Consortium: Lessons Learned toward Generating a Comprehensive Brain Cell Atlas von Ecker, Joseph R., Geschwind, Daniel H., Kriegstein, Arnold R., Ngai, John, Osten, Pavel, Polioudakis, Damon, Regev, Aviv, Sestan, Nenad, Wickersham, Ian R., Zeng, Hongkui

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Mapping genome-wide transcription-factor binding sites using DAP-seq von Bartlett, Anna, O'Malley, Ronan C, Huang, Shao-shan Carol, Galli, Mary, Nery, Joseph R, Gallavotti, Andrea, Ecker, Joseph R

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Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis von Zhang, Xiaoyu, Yazaki, Junshi, Sundaresan, Ambika, Cokus, Shawn, Chan, Simon W.-L., Chen, Huaming, Henderson, Ian R., Shinn, Paul, Pellegrini, Matteo, Jacobsen, Steve E., Ecker, Joseph R.

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Finding the fifth base: genome-wide sequencing of cytosine methylation von Lister, Ryan, Ecker, Joseph R

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Circadian Oscillations of Protein-Coding and Regulatory RNAs in a Highly Dynamic Mammalian Liver Epigenome von Vollmers, Christopher, Schmitz, Robert J., Nathanson, Jason, Yeo, Gene, Ecker, Joseph R., Panda, Satchidananda

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Auxin-sensitive Aux/IAA proteins mediate drought tolerance in Arabidopsis by regulating glucosinolate levels von Salehin, Mohammad, Li, Baohua, Tang, Michelle, Katz, Ella, Song, Liang, Ecker, Joseph R., Kliebenstein, Daniel J., Estelle, Mark

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Chimeric Activators and Repressors Define HY5 Activity and Reveal a Light-Regulated Feedback Mechanism von Burko, Yogev, Seluzicki, Adam, Zander, Mark, Pedmale, Ullas V, Ecker, Joseph R, Chory, Joanne

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A transcription factor hierarchy defines an environmental stress response network von Song, Liang, Huang, Shao-shan Carol, Wise, Aaron, Castanon, Rosa, Nery, Joseph R., Chen, Huaming, Watanabe, Marina, Thomas, Jerushah, Bar-Joseph, Ziv, Ecker, Joseph R.

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Chromatin architecture reorganization during stem cell differentiation von Dixon, Jesse R., Jung, Inkyung, Selvaraj, Siddarth, Shen, Yin, Antosiewicz-Bourget, Jessica E., Lee, Ah Young, Ye, Zhen, Kim, Audrey, Rajagopal, Nisha, Xie, Wei, Diao, Yarui, Liang, Jing, Zhao, Huimin, Lobanenkov, Victor V., Ecker, Joseph R., Thomson, James A., Ren, Bing

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MethylC-seq library preparation for base-resolution whole-genome bisulfite sequencing von Urich, Mark A, Nery, Joseph R, Lister, Ryan, Schmitz, Robert J, Ecker, Joseph R

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Widespread dynamic DNA methylation in response to biotic stress von Dowen, Robert H, Pelizzola, Mattia, Schmitz, Robert J, Lister, Ryan, Dowen, Jill M, Nery, Joseph R, Dixon, Jack E, Ecker, Joseph R

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Comprehensive analysis of single cell ATAC-seq data with SnapATAC von Fang, Rongxin, Preissl, Sebastian, Li, Yang, Hou, Xiaomeng, Lucero, Jacinta, Wang, Xinxin, Motamedi, Amir, Shiau, Andrew K., Zhou, Xinzhu, Xie, Fangming, Mukamel, Eran A., Zhang, Kai, Zhang, Yanxiao, Behrens, M. Margarita, Ecker, Joseph R., Ren, Bing

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