Coming full circle: On the origin and evolution of the looping model for enhancer–promoter communication

por Popay, Tessa M., Dixon, Jesse R.
Publicado 2022

Complete haplotype phasing of the MHC and KIR loci with targeted HaploSeq

por Selvaraj, Siddarth, Schmitt, Anthony D., Dixon, Jesse R., Ren, Bing
Publicado 2015

Foxp3 orchestrates reorganization of chromatin architecture to establish regulatory T cell identity

por Liu, Zhi, Lee, Dong-Sung, Liang, Yuqiong, Zheng, Ye, Dixon, Jesse R.
Publicado 2023

Foxp3 Orchestrates Reorganization of Chromatin Architecture to Establish Regulatory T Cell Identity

por Liu, Zhi, Lee, Dong-Sung, Liang, Yuqiong, Zheng, Ye, Dixon, Jesse R
Publicado 2023

Dynamic regulation of histone modifications and long-range chromosomal interactions during postmitotic transcriptional reactivation

por Kang, Hyeseon, Shokhirev, Maxim N., Xu, Zhichao, Chandran, Sahaana, Dixon, Jesse R., Hetzer, Martin W.
Publicado 2020

Topological Domains in Mammalian Genomes Identified by Analysis of Chromatin Interactions

por Dixon, Jesse R., Selvaraj, Siddarth, Yue, Feng, Kim, Audrey, Li, Yan, Shen, Yin, Hu, Ming, Liu, Jun S., Ren, Bing
Publicado 2012

CRISPR Reveals a Distal Super-Enhancer Required for Sox2 Expression in Mouse Embryonic Stem Cells

por Li, Yan, Rivera, Chloe M., Ishii, Haruhiko, Jin, Fulai, Selvaraj, Siddarth, Lee, Ah Young, Dixon, Jesse R., Ren, Bing
Publicado 2014

Robust single-cell Hi-C clustering by convolution- and random-walk–based imputation

por Zhou, Jingtian, Ma, Jianzhu, Chen, Yusi, Cheng, Chuankai, Bao, Bokan, Peng, Jian, Sejnowski, Terrence J., Dixon, Jesse R., Ecker, Joseph R.
Publicado 2019

A non-canonical BRD9-containing BAF chromatin remodeling complex regulates naive pluripotency in mouse embryonic stem cells

por Gatchalian, Jovylyn, Malik, Shivani, Ho, Josephine, Lee, Dong-Sung, Kelso, Timothy W. R., Shokhirev, Maxim N., Dixon, Jesse R., Hargreaves, Diana C.
Publicado 2018

A high-resolution map of three-dimensional chromatin interactome in human cells

por Jin, Fulai, Li, Yan, Dixon, Jesse R., Selvaraj, Siddarth, Ye, Zhen, Lee, Ah Young, Yen, Chia-An, Schmitt, Anthony D., Espinoza, Celso, Ren, Bing
Publicado 2013

Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

por Akdemir, Kadir C., Le, Victoria T., Chandran, Sahaana, Li, Yilong, Verhaak, Roel G., Beroukhim, Rameen, Campbell, Peter J., Chin, Lynda, Dixon, Jesse R., Futreal, P. Andrew
Publicado 2023

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

por Akdemir, Kadir C., Le, Victoria T., Chandran, Sahaana, Li, Yilong, Verhaak, Roel G., Beroukhim, Rameen, Campbell, Peter J., Chin, Lynda, Dixon, Jesse R., Futreal, P. Andrew
Publicado 2020

Simultaneous profiling of 3D genome structure and DNA methylation in single human cells

por Lee, Dong-Sung, Luo, Chongyuan, Zhou, Jingtian, Chandran, Sahaana, Rivkin, Angeline, Bartlett, Anna, Nery, Joseph R., Fitzpatrick, Conor, O’Connor, Carolyn, Dixon, Jesse R., Ecker, Joseph R.
Publicado 2019

Promoter-proximal CTCF-binding promotes long-range-enhancer dependent gene activation

por Kubo, Naoki, Ishii, Haruhiko, Xiong, Xiong, Bianco, Simona, Meitinger, Franz, Hu, Rong, Hocker, James D., Conte, Mattia, Gorkin, David, Yu, Miao, Li, Bin, Dixon, Jesse R., Hu, Ming, Nicodemi, Mario, Zhao, Huimin, Ren, Bing
Publicado 2021

Activation of HIV-1 proviruses increases downstream chromatin accessibility

por Shah, Raven, Gallardo, Christian M., Jung, Yoonhee H., Clock, Ben, Dixon, Jesse R., McFadden, William M., Majumder, Kinjal, Pintel, David J., Corces, Victor G., Torbett, Bruce E., Tedbury, Philip R., Sarafianos, Stefan G.
Publicado 2022

DNA methylation atlas of the mouse brain at single-cell resolution

por Liu, Hanqing, Zhou, Jingtian, Tian, Wei, Luo, Chongyuan, Bartlett, Anna, Aldridge, Andrew, Lucero, Jacinta, Osteen, Julia K., Nery, Joseph R., Chen, Huaming, Rivkin, Angeline, Castanon, Rosa G., Clock, Ben, Li, Yang Eric, Hou, Xiaomeng, Poirion, Olivier B., Preissl, Sebastian, Pinto-Duarte, Antonio, O’Connor, Carolyn, Boggeman, Lara, Fitzpatrick, Conor, Nunn, Michael, Mukamel, Eran A., Zhang, Zhuzhu, Callaway, Edward M., Ren, Bing, Dixon, Jesse R., Behrens, M. Margarita, Ecker, Joseph R.
Publicado 2021

Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain

por Liu, Hanqing, Zeng, Qiurui, Zhou, Jingtian, Bartlett, Anna, Wang, Bang-An, Berube, Peter, Tian, Wei, Kenworthy, Mia, Altshul, Jordan, Nery, Joseph R., Chen, Huaming, Castanon, Rosa G., Zu, Songpeng, Li, Yang Eric, Lucero, Jacinta, Osteen, Julia K., Pinto-Duarte, Antonio, Lee, Jasper, Rink, Jon, Cho, Silvia, Emerson, Nora, Nunn, Michael, O’Connor, Carolyn, Yao, Zizhen, Smith, Kimberly A., Tasic, Bosiljka, Zeng, Hongkui, Luo, Chongyuan, Dixon, Jesse R., Ren, Bing, Behrens, M. Margarita, Ecker, Joseph R
Publicado 2023

Single nucleus multi-omics identifies human cortical cell regulatory genome diversity

por Luo, Chongyuan, Liu, Hanqing, Xie, Fangming, Armand, Ethan J., Siletti, Kimberly, Bakken, Trygve E., Fang, Rongxin, Doyle, Wayne I., Stuart, Tim, Hodge, Rebecca D., Hu, Lijuan, Wang, Bang-An, Zhang, Zhuzhu, Preissl, Sebastian, Lee, Dong-Sung, Zhou, Jingtian, Niu, Sheng-Yong, Castanon, Rosa, Bartlett, Anna, Rivkin, Angeline, Wang, Xinxin, Lucero, Jacinta, Nery, Joseph R., Davis, David A., Mash, Deborah C., Satija, Rahul, Dixon, Jesse R., Linnarsson, Sten, Lein, Ed, Behrens, M. Margarita, Ren, Bing, Mukamel, Eran A., Ecker, Joseph R.
Publicado 2022

3D genome mapping identifies subgroup-specific chromosome conformations and tumor-dependency genes in ependymoma

por Okonechnikov, Konstantin, Camgöz, Aylin, Chapman, Owen, Wani, Sameena, Park, Donglim Esther, Hübner, Jens-Martin, Chakraborty, Abhijit, Pagadala, Meghana, Bump, Rosalind, Chandran, Sahaana, Kraft, Katerina, Acuna-Hidalgo, Rocio, Reid, Derek, Sikkink, Kristin, Mauermann, Monika, Juarez, Edwin F., Jenseit, Anne, Robinson, James T., Pajtler, Kristian W., Milde, Till, Jäger, Natalie, Fiesel, Petra, Morgan, Ling, Sridhar, Sunita, Coufal, Nicole G., Levy, Michael, Malicki, Denise, Hobbs, Charlotte, Kingsmore, Stephen, Nahas, Shareef, Snuderl, Matija, Crawford, John, Wechsler-Reya, Robert J., Davidson, Tom Belle, Cotter, Jennifer, Michaiel, George, Fleischhack, Gudrun, Mundlos, Stefan, Schmitt, Anthony, Carter, Hannah, Michealraj, Kulandaimanuvel Antony, Kumar, Sachin A., Taylor, Michael D., Rich, Jeremy, Buchholz, Frank, Mesirov, Jill P., Pfister, Stefan M., Ay, Ferhat, Dixon, Jesse R., Kool, Marcel, Chavez, Lukas
Publicado 2023

Integrative analysis of 111 reference human epigenomes

por Kundaje, Anshul, Meuleman, Wouter, Ernst, Jason, Bilenky, Misha, Yen, Angela, Kheradpour, Pouya, Zhang, Zhizhuo, Heravi-Moussavi, Alireza, Liu, Yaping, Amin, Viren, Ziller, Michael J, Whitaker, John W, Schultz, Matthew D, Sandstrom, Richard S, Eaton, Matthew L, Wu, Yi-Chieh, Wang, Jianrong, Ward, Lucas D, Sarkar, Abhishek, Quon, Gerald, Pfenning, Andreas, Wang, Xinchen, Claussnitzer, Melina, Coarfa, Cristian, Harris, R Alan, Shoresh, Noam, Epstein, Charles B, Gjoneska, Elizabeta, Leung, Danny, Xie, Wei, Hawkins, R David, Lister, Ryan, Hong, Chibo, Gascard, Philippe, Mungall, Andrew J, Moore, Richard, Chuah, Eric, Tam, Angela, Canfield, Theresa K, Hansen, R Scott, Kaul, Rajinder, Sabo, Peter J, Bansal, Mukul S, Carles, Annaick, Dixon, Jesse R, Farh, Kai-How, Feizi, Soheil, Karlic, Rosa, Kim, Ah-Ram, Kulkarni, Ashwinikumar, Li, Daofeng, Lowdon, Rebecca, Mercer, Tim R, Neph, Shane J, Onuchic, Vitor, Polak, Paz, Rajagopal, Nisha, Ray, Pradipta, Sallari, Richard C, Siebenthall, Kyle T, Sinnott-Armstrong, Nicholas, Stevens, Michael, Thurman, Robert E, Wu, Jie, Zhang, Bo, Zhou, Xin, Beaudet, Arthur E, Boyer, Laurie A, De Jager, Philip, Farnham, Peggy J, Fisher, Susan J, Haussler, David, Jones, Steven, Li, Wei, Marra, Marco, McManus, Michael T, Sunyaev, Shamil, Thomson, James A, Tlsty, Thea D, Tsai, Li-Huei, Wang, Wei, Waterland, Robert A, Zhang, Michael, Chadwick, Lisa H, Bernstein, Bradley E, Costello, Joseph F, Ecker, Joseph R, Hirst, Martin, Meissner, Alexander, Milosavljevic, Aleksandar, Ren, Bing, Stamatoyannopoulos, John A, Wang, Ting, Kellis, Manolis
Publicado 2015