Promoters Recognized by Forkhead Proteins Exist for Individual 21U-RNAs von Cecere, Germano, Zheng, Grace X.Y., Mansisidor, Andres R., Klymko, Katherine E., Grishok, Alla

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MicroRNAs can generate thresholds in target gene expression von Mukherji, Shankar, Ebert, Margaret S, Zheng, Grace X Y, Tsang, John S, Sharp, Phillip A, van Oudenaarden, Alexander

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Organoid Modeling of the Tumor Immune Microenvironment von Neal, James T., Li, Xingnan, Zhu, Junjie, Giangarra, Valeria, Grzeskowiak, Caitlin L., Ju, Jihang, Liu, Iris H., Chiou, Shin-Heng, Salahudeen, Ameen A., Smith, Amber R., Deutsch, Brian C., Liao, Lillian, Zemek, Allison J., Zhao, Fan, Karlsson, Kasper, Schultz, Liora M., Metzner, Thomas J., Nadauld, Lincoln D., Tseng, Yuen-Yi, Alkhairy, Sahar, Oh, Coyin, Keskula, Paula, Mendoza-Villanueva, Daniel, De La Vega, Francisco M., Kunz, Pamela L., Liao, Joseph C., Leppert, John T., Sunwoo, John B., Sabatti, Chiara, Boehm, Jesse S., Hahn, William C., Zheng, Grace X.Y., Davis, Mark M., Kuo, Calvin J.

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Control of somatic tissue differentiation by the long non-coding RNA TINCR von Kretz, Markus, Siprashvili, Zurab, Chu, Ci, Webster, Dan E., Zehnder, Ashley, Qu, Kun, Lee, Carolyn S., Flockhart, Ross J., Groff, Abigail F., Chow, Jennifer, Johnston, Danielle, Kim, Grace E., Spitale, Robert C., Flynn, Ryan A., Zheng, Grace X. Y., Aiyer, Subhadra, Raj, Arjun, Rinn, John L., Chang, Howard Y., Khavari, Paul A.

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Suppression of progenitor differentiation requires the long noncoding RNA ANCR von Kretz, Markus, Webster, Dan E, Flockhart, Ross J, Lee, Carolyn S, Zehnder, Ashley, Lopez-Pajares, Vanessa, Qu, Kun, Zheng, Grace X Y, Chow, Jennifer, Kim, Grace E, Rinn, John L, Chang, Howard Y, Siprashvili, Zurab, Khavari, Paul A

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Extensive sequencing of seven human genomes to characterize benchmark reference materials von Zook, Justin M., Catoe, David, McDaniel, Jennifer, Vang, Lindsay, Spies, Noah, Sidow, Arend, Weng, Ziming, Liu, Yuling, Mason, Christopher E., Alexander, Noah, Henaff, Elizabeth, McIntyre, Alexa B.R., Chandramohan, Dhruva, Chen, Feng, Jaeger, Erich, Moshrefi, Ali, Pham, Khoa, Stedman, William, Liang, Tiffany, Saghbini, Michael, Dzakula, Zeljko, Hastie, Alex, Cao, Han, Deikus, Gintaras, Schadt, Eric, Sebra, Robert, Bashir, Ali, Truty, Rebecca M., Chang, Christopher C., Gulbahce, Natali, Zhao, Keyan, Ghosh, Srinka, Hyland, Fiona, Fu, Yutao, Chaisson, Mark, Xiao, Chunlin, Trow, Jonathan, Sherry, Stephen T., Zaranek, Alexander W., Ball, Madeleine, Bobe, Jason, Estep, Preston, Church, George M., Marks, Patrick, Kyriazopoulou-Panagiotopoulou, Sofia, Zheng, Grace X.Y., Schnall-Levin, Michael, Ordonez, Heather S., Mudivarti, Patrice A., Giorda, Kristina, Sheng, Ying, Rypdal, Karoline Bjarnesdatter, Salit, Marc

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Dicer-microRNA-Myc circuit promotes transcription of hundreds of long noncoding RNAs von Zheng, Grace X Y, Do, Brian T, Webster, Dan E, Khavari, Paul A, Chang, Howard Y

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Integrated Single-Cell Transcriptomics and Chromatin Accessibility Analysis Reveals Regulators of Mammary Epithelial Cell Identity von Pervolarakis, Nicholas, Nguyen, Quy H., Williams, Justice, Gong, Yanwen, Gutierrez, Guadalupe, Sun, Peng, Jhutty, Darisha, Zheng, Grace X.Y., Nemec, Corey M., Dai, Xing, Watanabe, Kazuhide, Kessenbrock, Kai

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Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion von Satpathy, Ansuman T., Granja, Jeffrey M., Yost, Kathryn E., Qi, Yanyan, Meschi, Francesca, McDermott, Geoffrey P., Olsen, Brett N., Mumbach, Maxwell R., Pierce, Sarah E., Corces, M. Ryan, Shah, Preyas, Bell, Jason C., Jhutty, Darisha, Nemec, Corey M., Wang, Jean, Wang, Li, Yin, Yifeng, Giresi, Paul G., Chang, Anne Lynn S., Zheng, Grace X. Y., Greenleaf, William J., Chang, Howard Y.

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Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia von Granja, Jeffrey M., Klemm, Sandy, McGinnis, Lisa M., Kathiria, Arwa S., Mezger, Anja, Corces, M. Ryan, Parks, Benjamin, Gars, Eric, Liedtke, Michaela, Zheng, Grace X. Y., Chang, Howard Y., Majeti, Ravindra, Greenleaf, William J.

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Massively parallel digital transcriptional profiling of single cells von Zheng, Grace X. Y., Terry, Jessica M., Belgrader, Phillip, Ryvkin, Paul, Bent, Zachary W., Wilson, Ryan, Ziraldo, Solongo B., Wheeler, Tobias D., McDermott, Geoff P., Zhu, Junjie, Gregory, Mark T., Shuga, Joe, Montesclaros, Luz, Underwood, Jason G., Masquelier, Donald A., Nishimura, Stefanie Y., Schnall-Levin, Michael, Wyatt, Paul W., Hindson, Christopher M., Bharadwaj, Rajiv, Wong, Alexander, Ness, Kevin D., Beppu, Lan W., Deeg, H. Joachim, McFarland, Christopher, Loeb, Keith R., Valente, William J., Ericson, Nolan G., Stevens, Emily A., Radich, Jerald P., Mikkelsen, Tarjei S., Hindson, Benjamin J., Bielas, Jason H.

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Progenitor identification and SARS-CoV-2 infection in human distal lung organoids von Salahudeen, Ameen A., Choi, Shannon S., Rustagi, Arjun, Zhu, Junjie, van Unen, Vincent, de la O, Sean M., Flynn, Ryan A., Margalef-Català, Mar, Santos, António J. M., Ju, Jihang, Batish, Arpit, Usui, Tatsuya, Zheng, Grace X. Y., Edwards, Caitlin E., Wagar, Lisa E., Luca, Vincent, Anchang, Benedict, Nagendran, Monica, Nguyen, Khanh, Hart, Daniel J., Terry, Jessica M., Belgrader, Phillip, Ziraldo, Solongo B., Mikkelsen, Tarjei S., Harbury, Pehr B., Glenn, Jeffrey S., Garcia, K. Christopher, Davis, Mark M., Baric, Ralph S., Sabatti, Chiara, Amieva, Manuel R., Blish, Catherine A., Desai, Tushar J., Kuo, Calvin J.

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Single-cell RNA-Seq of follicular lymphoma reveals malignant B-cell types and coexpression of T-cell immune checkpoints von Andor, Noemi, Simonds, Erin F., Czerwinski, Debra K., Chen, Jiamin, Grimes, Susan M., Wood-Bouwens, Christina, Zheng, Grace X.Y., Kubit, Matthew A., Greer, Stephanie, Weiss, William A., Levy, Ronald, Ji, Hanlee P.

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Haplotyping germline and cancer genomes with high-throughput linked-read sequencing von Zheng, Grace X Y, Lau, Billy T, Schnall-Levin, Michael, Jarosz, Mirna, Bell, John M, Hindson, Christopher M, Kyriazopoulou-Panagiotopoulou, Sofia, Masquelier, Donald A, Merrill, Landon, Terry, Jessica M, Mudivarti, Patrice A, Wyatt, Paul W, Bharadwaj, Rajiv, Makarewicz, Anthony J, Li, Yuan, Belgrader, Phillip, Price, Andrew D, Lowe, Adam J, Marks, Patrick, Vurens, Gerard M, Hardenbol, Paul, Montesclaros, Luz, Luo, Melissa, Greenfield, Lawrence, Wong, Alexander, Birch, David E, Short, Steven W, Bjornson, Keith P, Patel, Pranav, Hopmans, Erik S, Wood, Christina, Kaur, Sukhvinder, Lockwood, Glenn K, Stafford, David, Delaney, Joshua P, Wu, Indira, Ordonez, Heather S, Grimes, Susan M, Greer, Stephanie, Lee, Josephine Y, Belhocine, Kamila, Giorda, Kristina M, Heaton, William H, McDermott, Geoffrey P, Bent, Zachary W, Meschi, Francesca, Kondov, Nikola O, Wilson, Ryan, Bernate, Jorge A, Gauby, Shawn, Kindwall, Alex, Bermejo, Clara, Fehr, Adrian N, Chan, Adrian, Saxonov, Serge, Ness, Kevin D, Hindson, Benjamin J, Ji, Hanlee P

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Non-equivalence of Wnt and R-spondin ligands during Lgr5+ intestinal stem-cell self-renewal von Yan, Kelley S., Janda, Claudia Y., Chang, Junlei, Zheng, Grace X. Y., Larkin, Kathryn A., Luca, Vincent C., Chia, Luis A., Mah, Amanda T., Han, Arnold, Terry, Jessica M., Ootani, Akifumi, Roelf, Kelly, Lee, Mark, Yuan, Jenny, Li, Xiao, Bolen, Christopher R., Wilhelmy, Julie, Davies, Paige S., Ueno, Hiroo, von Furstenberg, Richard J., Belgrader, Phillip, Ziraldo, Solongo B., Ordonez, Heather, Henning, Susan J., Wong, Melissa H., Snyder, Michael P., Weissman, Irving L., Hsueh, Aaron J., Mikkelsen, Tarjei S., Garcia, K. Christopher, Kuo, Calvin J.

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Dynamic regulation of miRNA expression in ordered stages of cellular development von Neilson, Joel R, Zheng, Grace X Y, Burge, Christopher B, Sharp, Phillip A

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Intestinal Enteroendocrine Lineage Cells Possess Homeostatic and Injury-Inducible Stem Cell Activity von Yan, Kelley S., Gevaert, Olivier, Zheng, Grace X.Y., Anchang, Benedict, Probert, Christopher S., Larkin, Kathryn A., Davies, Paige S., Cheng, Zhuan-fen, Kaddis, John S., Han, Arnold, Roelf, Kelly, Calderon, Ruben I., Cynn, Esther, Hu, Xiaoyi, Mandleywala, Komal, Wilhelmy, Julie, Grimes, Sue M., Corney, David C., Boutet, Stéphane C., Terry, Jessica M., Belgrader, Phillip, Ziraldo, Solongo B., Mikkelsen, Tarjei S., Wang, Fengchao, von Furstenberg, Richard J., Smith, Nicholas R., Chandrakesan, Parthasarathy, May, Randal, Chrissy, Mary Ann S., Jain, Rajan, Cartwright, Christine A., Niland, Joyce C., Hong, Young-Kwon, Carrington, Jill, Breault, David T., Epstein, Jonathan, Houchen, Courtney W., Lynch, John P., Martin, Martin G., Plevritis, Sylvia K., Curtis, Christina, Ji, Hanlee P., Li, Linheng, Henning, Susan J., Wong, Melissa H., Kuo, Calvin J.

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A latent pro-survival function for the mir-290-295 cluster in mouse embryonic stem cells von Zheng, Grace X Y, Ravi, Arvind, Calabrese, J Mauro, Medeiros, Lea A, Kirak, Oktay, Dennis, Lucas M, Jaenisch, Rudolf, Burge, Christopher B, Sharp, Phillip A

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Genome-wide impact of a recently expanded microRNA cluster in mouse von Zheng, Grace X. Y, Ravi, Arvind, Gould, Genevieve M, Burge, Christopher B, Sharp, Phillip A

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Abstract 150: Single cell mRNA quantification from 1000s of cells in healthy and malignant tumor samples using a high-throughput droplet-based system von Zheng, Grace X.y., Mikkelsen, Tarjei, Terry, Jessica, Belgrader, Phillip, Ryvkin, Paul, Wilson, Ryan, Wheeler, Tobias D., Bent, Zachary, McDermott, Geoff, Ziraldo, Solongo, Wong, Alexander, Schnall-Levin, Michael, Hindson, Ben

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