Identification of higher-order functional domains in the human ENCODE regions

Por Thurman, Robert E., Day, Nathan, Noble, William S., Stamatoyannopoulos, John A.
Publicado em 2007

Predicting Human Nucleosome Occupancy from Primary Sequence

Por Gupta, Shobhit, Dennis, Jonathan, Thurman, Robert E., Kingston, Robert, Stamatoyannopoulos, John A., Noble, William Stafford
Publicado em 2008

Human mutation rate associated with DNA replication timing

Por Stamatoyannopoulos, John A., Adzhubei, Ivan, Thurman, Robert E., Kryukov, Gregory V., Mirkin, Sergei M., Sunyaev, Shamil R.
Publicado em 2009

Nucleosome positioning signals in genomic DNA

Por Peckham, Heather E., Thurman, Robert E., Fu, Yutao, Stamatoyannopoulos, John A., Noble, William Stafford, Struhl, Kevin, Weng, Zhiping
Publicado em 2007

Personal and population genomics of human regulatory variation

Por Vernot, Benjamin, Stergachis, Andrew B., Maurano, Matthew T., Vierstra, Jeff, Neph, Shane, Thurman, Robert E., Stamatoyannopoulos, John A., Akey, Joshua M.
Publicado em 2012

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions

Por Sheffield, Nathan C., Thurman, Robert E., Song, Lingyun, Safi, Alexias, Stamatoyannopoulos, John A., Lenhard, Boris, Crawford, Gregory E., Furey, Terrence S.
Publicado em 2013

Sequencing newly replicated DNA reveals widespread plasticity in human replication timing

Por Hansen, R. Scott, Thomas, Sean, Sandstrom, Richard, Canfield, Theresa K., Thurman, Robert E., Weaver, Molly, Dorschner, Michael O., Gartler, Stanley M., Stamatoyannopoulos, John A.
Publicado em 2009

Reduced local mutation density in regulatory DNA of cancer genomes is linked to DNA repair

Por Polak, Paz, Lawrence, Michael S., Haugen, Eric, Stoletzki, Nina, Stojanov, Petar, Thurman, Robert E, Garraway, Levi A., Mirkin, Sergei, Getz, Gad, Stamatoyannopoulos, John A., Sunyaev, Shamil R.
Publicado em 2013

Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements

Por Hakim, Ofir, Sung, Myong-Hee, Voss, Ty C., Splinter, Erik, John, Sam, Sabo, Peter J., Thurman, Robert E., Stamatoyannopoulos, John A., de Laat, Wouter, Hager, Gordon L.
Publicado em 2011

Genome-scale Mapping of DNaseI Hypersensitivity

Por John, Sam, Sabo, Peter J., Canfield, Theresa K., Lee, Kristen, Vong, Shinny, Weaver, Molly, Wang, Hao, Vierstra, Jeff, Reynolds, Alex P., Thurman, Robert E., Stamatoyannopoulos, John A.
Publicado no Curr Protoc Mol Biol (2013)

Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

Por Hesselberth, Jay R., Chen, Xiaoyu, Zhang, Zhihong, Sabo, Peter J., Sandstrom, Richard, Reynolds, Alex P., Thurman, Robert E., Neph, Shane, Kuehn, Michael S., Noble, William S., Fields, Stanley, Stamatoyannopoulos, John A.
Publicado em 2009

Dynamic reprogramming of chromatin accessibility during Drosophila embryo development

Por Thomas, Sean, Li, Xiao-Yong, Sabo, Peter J, Sandstrom, Richard, Thurman, Robert E, Canfield, Theresa K, Giste, Erika, Fisher, William, Hammonds, Ann, Celniker, Susan E, Biggin, Mark D, Stamatoyannopoulos, John A
Publicado em 2011

BEDOPS: high-performance genomic feature operations

Por Neph, Shane, Kuehn, M. Scott, Reynolds, Alex P., Haugen, Eric, Thurman, Robert E., Johnson, Audra K., Rynes, Eric, Maurano, Matthew T., Vierstra, Jeff, Thomas, Sean, Sandstrom, Richard, Humbert, Richard, Stamatoyannopoulos, John A.
Publicado em 2012

Widespread plasticity in CTCF occupancy linked to DNA methylation

Por Wang, Hao, Maurano, Matthew T., Qu, Hongzhu, Varley, Katherine E., Gertz, Jason, Pauli, Florencia, Lee, Kristen, Canfield, Theresa, Weaver, Molly, Sandstrom, Richard, Thurman, Robert E., Kaul, Rajinder, Myers, Richard M., Stamatoyannopoulos, John A.
Publicado em 2012

DNA methylation status predicts cell type-specific enhancer activity

Por Wiench, Malgorzata, John, Sam, Baek, Songjoon, Johnson, Thomas A, Sung, Myong-Hee, Escobar, Thelma, Simmons, Catherine A, Pearce, Kenneth H, Biddie, Simon C, Sabo, Pete J, Thurman, Robert E, Stamatoyannopoulos, John A, Hager, Gordon L
Publicado em 2011

Transcription Factor AP1 Potentiates Chromatin Accessibility and Glucocorticoid Receptor Binding

Por Biddie, Simon C., John, Sam, Sabo, Pete J., Thurman, Robert E., Johnson, Thomas A., Schiltz, R. Louis, Miranda, Tina B., Sung, Myong-Hee, Trump, Saskia, Lightman, Stafford L., Vinson, Charles, Stamatoyannopoulos, John A., Hager, Gordon L.
Publicado em 2011

Developmental Fate and Cellular Maturity Encoded in Human Regulatory DNA Landscapes

Por Stergachis, Andrew B., Neph, Shane, Reynolds, Alex, Humbert, Richard, Miller, Brady, Paige, Sharon L., Vernot, Benjamin, Cheng, Jeffrey B., Thurman, Robert E., Sandstrom, Richard, Haugen, Eric, Heimfeld, Shelly, Murry, Charles E., Akey, Joshua M., Stamatoyannopoulos, John A.
Publicado em 2013

Topologically associating domains are stable units of replication-timing regulation

Por Pope, Benjamin D., Ryba, Tyrone, Dileep, Vishnu, Yue, Feng, Wu, Weisheng, Denas, Olgert, Vera, Daniel L., Wang, Yanli, Hansen, R. Scott, Canfield, Theresa K., Thurman, Robert E., Cheng, Yong, Gülsoy, Günhan, Dennis, Jonathan H., Snyder, Michael P., Stamatoyannopoulos, John A., Taylor, James, Hardison, Ross C., Kahveci, Tamer, Ren, Bing, Gilbert, David M.
Publicado no Nature (2014)

Conservation of trans-acting circuitry during mammalian regulatory evolution

Por Stergachis, Andrew B., Neph, Shane, Sandstrom, Richard, Haugen, Eric, Reynolds, Alex P., Zhang, Miaohua, Byron, Rachel, Canfield, Theresa, Stelhing-Sun, Sandra, Lee, Kristen, Thurman, Robert E., Vong, Shinny, Bates, Daniel, Neri, Fidencio, Diegel, Morgan, Giste, Erika, Dunn, Douglas, Vierstra, Jeff, Hansen, R. Scott, Johnson, Audra K., Sabo, Peter J., Wilken, Matthew S., Reh, Thomas A., Treuting, Piper M., Kaul, Rajinder, Groudine, Mark, Bender, M. A., Borenstein, Elhanan, Stamatoyannopoulos, John A.
Publicado no Nature (2014)

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

Por Maurano, Matthew T., Humbert, Richard, Rynes, Eric, Thurman, Robert E., Haugen, Eric, Wang, Hao, Reynolds, Alex P., Sandstrom, Richard, Qu, Hongzhu, Brody, Jennifer, Shafer, Anthony, Neri, Fidencio, Lee, Kristen, Kutyavin, Tanya, Stehling-Sun, Sandra, Johnson, Audra K., Canfield, Theresa K., Giste, Erika, Diegel, Morgan, Bates, Daniel, Hansen, R. Scott, Neph, Shane, Sabo, Peter J., Heimfeld, Shelly, Raubitschek, Antony, Ziegler, Steven, Cotsapas, Chris, Sotoodehnia, Nona, Glass, Ian, Sunyaev, Shamil R., Kaul, Rajinder, Stamatoyannopoulos, John A.
Publicado em 2012