Determination of the in vivo structural DNA loop organization in the genomic region of the rat albumin locus by means of a topological approach

por Rivera-Mulia, Juan Carlos, Aranda-Anzaldo, Armando
Publicado 2010

Computing interaction probabilities in signaling networks

por Gabr, Haitham, Rivera-Mulia, Juan Carlos, Gilbert, David M., Kahveci, Tamer
Publicado 2015

DNA moves sequentially towards the nuclear matrix during DNA replication in vivo

por Rivera-Mulia, Juan Carlos, Hernández-Muñoz, Rolando, Martínez, Federico, Aranda-Anzaldo, Armando
Publicado 2011

Epigenomic signatures associated with spontaneous and replication stress-induced DNA double strand breaks

por Kodali, Sravan, Meyer-Nava, Silvia, Landry, Stephen, Chakraborty, Arijita, Rivera-Mulia, Juan Carlos, Feng, Wenyi
Publicado 2022

In Silico Stage-Matching of Human, Marmoset, Mouse, and Pig Embryos to Enhance Organ Development Through Interspecies Chimerism

por Shetty, Anala, Lim, Seunghyun, Strell, Phoebe, Steer, Clifford J., Rivera-Mulia, Juan Carlos, Low, Walter C.
Publicado 2023

Replication timing networks reveal a link between transcription regulatory circuits and replication timing control

por Rivera-Mulia, Juan Carlos, Kim, Sebo, Gabr, Haitham, Chakraborty, Abhijit, Ay, Ferhat, Kahveci, Tamer, Gilbert, David M.
Publicado 2019

Copy Number Variation Is a Fundamental Aspect of the Placental Genome

por Hannibal, Roberta L., Chuong, Edward B., Rivera-Mulia, Juan Carlos, Gilbert, David M., Valouev, Anton, Baker, Julie C.
Publicado 2014

3D genome organization contributes to genome instability at fragile sites

por Sarni, Dan, Sasaki, Takayo, Irony Tur-Sinai, Michal, Miron, Karin, Rivera-Mulia, Juan Carlos, Magnuson, Brian, Ljungman, Mats, Gilbert, David M., Kerem, Batsheva
Publicado 2020

Allele-specific control of replication timing and genome organization during development

por Rivera-Mulia, Juan Carlos, Dimond, Andrew, Vera, Daniel, Trevilla-Garcia, Claudia, Sasaki, Takayo, Zimmerman, Jared, Dupont, Catherine, Gribnau, Joost, Fraser, Peter, Gilbert, David M.
Publicado 2018

Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells

por 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.
Publicado 2015

Rapid Irreversible Transcriptional Reprogramming in Human Stem Cells Accompanied by Discordance between Replication Timing and Chromatin Compartment

por Dileep, Vishnu, Wilson, Korey A., Marchal, Claire, Lyu, Xiaowen, Zhao, Peiyao A., Li, Ben, Poulet, Axel, Bartlett, Daniel A., Rivera-Mulia, Juan Carlos, Qin, Zhaohui S., Robins, Allan J., Schulz, Thomas C., Kulik, Michael J., McCord, Rachel Patton, Dekker, Job, Dalton, Stephen, Corces, Victor G., Gilbert, David M.
Publicado 2019

4D Genome Rewiring during Oncogene-Induced and Replicative Senescence

por Sati, Satish, Bonev, Boyan, Szabo, Quentin, Jost, Daniel, Bensadoun, Paul, Serra, Francois, Loubiere, Vincent, Papadopoulos, Giorgio Lucio, Rivera-Mulia, Juan-Carlos, Fritsch, Lauriane, Bouret, Pauline, Castillo, David, Gelpi, Josep Ll., Orozco, Modesto, Vaillant, Cedric, Pellestor, Franck, Bantignies, Frederic, Marti-Renom, Marc A., Gilbert, David M., Lemaitre, Jean-Marc, Cavalli, Giacomo
Publicado 2020

An integrative ENCODE resource for cancer genomics

por 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
Publicado 2020

Expanded encyclopaedias of DNA elements in the human and mouse genomes

por Moore, Jill E., Purcaro, Michael J., Pratt, Henry E., Epstein, Charles B., Shoresh, Noam, Adrian, Jessika, Kawli, Trupti, Davis, Carrie A., Dobin, Alexander, Kaul, Rajinder, Halow, Jessica, Van Nostrand, Eric L., Freese, Peter, Gorkin, David U., Shen, Yin, He, Yupeng, Mackiewicz, Mark, Pauli-Behn, Florencia, Williams, Brian A., Mortazavi, Ali, Keller, Cheryl A., Zhang, Xiao-Ou, Elhajjajy, Shaimae I., Huey, Jack, Dickel, Diane E., Snetkova, Valentina, Wei, Xintao, Wang, Xiaofeng, Rivera-Mulia, Juan Carlos, Rozowsky, Joel, Zhang, Jing, Chhetri, Surya B., Zhang, Jialing, Victorsen, Alec, White, Kevin P., Visel, Axel, Yeo, Gene W., Burge, Christopher B., Lécuyer, Eric, Gilbert, David M., Dekker, Job, Rinn, John, Mendenhall, Eric M., Ecker, Joseph R., Kellis, Manolis, Klein, Robert J., Noble, William S., Kundaje, Anshul, Guigó, Roderic, Farnham, Peggy J., Cherry, J. Michael, Myers, Richard M., Ren, Bing, Graveley, Brenton R., Gerstein, Mark B., Pennacchio, Len A., Snyder, Michael P., Bernstein, Bradley E., Wold, Barbara, Hardison, Ross C., Gingeras, Thomas R., Stamatoyannopoulos, John A., Weng, Zhiping
Publicado 2020

Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes

por Moore, Jill E., Purcaro, Michael J., Pratt, Henry E., Epstein, Charles B., Shoresh, Noam, Adrian, Jessika, Kawli, Trupti, Davis, Carrie A., Dobin, Alexander, Kaul, Rajinder, Halow, Jessica, Van Nostrand, Eric L., Freese, Peter, Gorkin, David U., Shen, Yin, He, Yupeng, Mackiewicz, Mark, Pauli-Behn, Florencia, Williams, Brian A., Mortazavi, Ali, Keller, Cheryl A., Zhang, Xiao-Ou, Elhajjajy, Shaimae I., Huey, Jack, Dickel, Diane E., Snetkova, Valentina, Wei, Xintao, Wang, Xiaofeng, Rivera-Mulia, Juan Carlos, Rozowsky, Joel, Zhang, Jing, Chhetri, Surya B., Zhang, Jialing, Victorsen, Alec, White, Kevin P., Visel, Axel, Yeo, Gene W., Burge, Christopher B., Lécuyer, Eric, Gilbert, David M., Dekker, Job, Rinn, John, Mendenhall, Eric M., Ecker, Joseph R., Kellis, Manolis, Klein, Robert J., Noble, William S., Kundaje, Anshul, Guigó, Roderic, Farnham, Peggy J., Cherry, J. Michael, Myers, Richard M., Ren, Bing, Graveley, Brenton R., Gerstein, Mark B., Pennacchio, Len A., Snyder, Michael P., Bernstein, Bradley E., Wold, Barbara, Hardison, Ross C., Gingeras, Thomas R., Stamatoyannopoulos, John A., Weng, Zhiping
Publicado 2022