OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries

by An, Lin, Yang, Tao, Yang, Jiahao, Nubler, Johannes, Xiang, Guanjue, Hardison, Ross C, Li, Qunhua, Zhang, Yu
Published 2020

Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps

by Kellis, Manolis, Mortazavi, Ali, Pepke, Shirley, Jansen, Camden, Marinov, Georgi K., Ernst, Jason, Hardison, Ross C., Myers, Richard M., Wold, Barbara J.
Published 2014

Insights into GATA-1 Mediated Gene Activation versus Repression via Genome-wide Chromatin Occupancy Analysis

by Yu, Ming, Riva, Laura, Schindler, Yocheved, Moran, Tyler B., Cheng, Yong, Yu, Duonan, Hardison, Ross C., Weiss, Mitchell J., Orkin, Stuart H., Bernstein, Bradley E., Fraenkel, Ernest, Cantor, Alan B.
Published 2010

Integrative annotation of chromatin elements from ENCODE data

by Ernst, Jason, Kellis, Manolis, Hoffman, Michael M., Wilder, Steven P., Kundaje, Anshul, Harris, Robert S., Libbrecht, Max, Giardine, Belinda, Ellenbogen, Paul M., Bilmes, Jeffrey A., Birney, Ewan, Hardison, Ross C., Dunham, Ian, Noble, William Stafford
Published 2013

Dynamics of the Epigenetic Landscape During Erythroid Differentiation after Gata1 Restoration

by Wu, Weisheng, Cheng, Yong, Keller, Cheryl A., Ernst, Jason, Kumar, Swathi Ashok, Mishra, Tejaswini, Morrissey, Christapher, Dorman, Christine M., Chen, Kuan-Bei, Drautz, Daniela, Giardine, Belinda, Shibata, Yoichiro, Song, Lingyun, Pimkin, Max, Crawford, Gregory E., Furey, Terrence S., Kellis, Manolis, Miller, Webb, Taylor, James, Schuster, Stephan C., Zhang, Yu, Chiaromonte, Francesca, Blobel, Gerd A., Weiss, Mitchell J., Hardison, Ross C.
Published 2012

Defining functional DNA elements in the human genome

by Kellis, Manolis, Wold, Barbara, Snyder, Michael P., Bernstein, Bradley E., Kundaje, Anshul, Marinov, Georgi K., Ward, Lucas D., Birney, Ewan, Crawford, Gregory E., Dekker, Job, Dunham, Ian, Elnitski, Laura L., Farnham, Peggy J., Feingold, Elise A., Gerstein, Mark B., Giddings, Morgan C., Gilbert, David M., Gingeras, Thomas R., Green, Eric D., Guigo, Roderic, Hubbard, Tim, Kent, Jim, Lieb, Jason D., Myers, Richard M., Pazin, Michael J., Ren, Bing, Stamatoyannopoulos, John A., Weng, Zhiping, White, Kevin P., Hardison, Ross C.
Published 2014

Expanded encyclopaedias of DNA elements in the human and mouse genomes

by 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 Dale, 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
Published 2021