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

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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.

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Conversion events in gene clusters by Hardison Ross C, Zhang Louxin, Hoffmann Federico, Kim Hie, Zhang Yu, Riemer Cathy, Hsu Chih-Hao, Song Giltae, Green Eric D, Miller Webb

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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.

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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

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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.

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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.

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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

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