hnRNPM protects against the dsRNA-mediated interferon response by repressing LINE-associated cryptic splicing

Authors: Zheng, Rong, Dunlap, Mikayla, Bobkov, Georg O.M., Gonzalez-Figueroa, Carlos, Patel, Khushali J., Lyu, Jingyi, Harvey, Samuel E., Chan, Tracey W., Quinones-Valdez, Giovanni, Choudhury, Mudra, Le Roux, Charlotte A., Bartels, Mason D., Vuong, Amy, Flynn, Ryan A., Chang, Howard Y., Van Nostrand, Eric L., Xiao, Xinshu, Cheng, Chonghui

Source: In Molecular Cell 6 June 2024 84(11):2087-2103

Pathways for macrophage uptake of cell-free circular RNAs

Authors: Amaya, Laura, Abe, Brian, Liu, Jie, Zhao, Feifei, Zhang, Wenyan Lucy, Chen, Robert, Li, Rui, Wang, Steven, Kamber, Roarke A., Tsai, Miao-Chih, Bassik, Michael C., Majeti, Ravindra, Chang, Howard Y.

Source: In Molecular Cell 6 June 2024 84(11):2104-2118

Approaches to probe and perturb long noncoding RNA functions in diseases

Authors: Wang, Guiping ^*, Lee-Yow, Yannick ^*, Chang, Howard Y ^*

Source: In Current Opinion in Genetics & Development April 2024 85

Xist ribonucleoproteins promote female sex-biased autoimmunity

Authors: Dou, Diana R., Zhao, Yanding, Belk, Julia A., Zhao, Yang, Casey, Kerriann M., Chen, Derek C., Li, Rui, Yu, Bingfei, Srinivasan, Suhas, Abe, Brian T., Kraft, Katerina, Hellström, Ceke, Sjöberg, Ronald, Chang, Sarah, Feng, Allan, Goldman, Daniel W., Shah, Ami A., Petri, Michelle, Chung, Lorinda S., Fiorentino, David F., Lundberg, Emma K., Wutz, Anton, Utz, Paul J., Chang, Howard Y.

Source: In Cell 1 February 2024 187(3):733-749

Reversing the Central Dogma: RNA-guided control of DNA in epigenetics and genome editing

Authors: Chang, Howard Y., Qi, Lei S.

Source: Molecular cell. 83(3):442-451

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100180484761.0x000001&indx=1&recIds=ETOCvdc_100180484761.0x000001

Integrative multi-omic profiling of adult mouse brain endothelial cells and potential implications in Alzheimer’s disease

Authors: Yu, Min, Nie, Yage, Yang, Jiawen, Yang, Shilun, Li, Rui, Rao, Varsha, Hu, Xiaoyan, Fang, Cheng, Li, Simeng, Song, Dengpan, Guo, Fuyou, Snyder, Michael P., Chang, Howard Y., Kuo, Calvin J., Xu, Jin, Chang, Junlei

Source: In Cell Reports 28 November 2023 42(11)

Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells

Authors: Tsuchida, Connor A., Brandes, Nadav, Bueno, Raymund, Trinidad, Marena, Mazumder, Thomas, Yu, Bingfei, Hwang, Byungjin, Chang, Christopher, Liu, Jamin, Sun, Yang, Hopkins, Caitlin R., Parker, Kevin R., Qi, Yanyan, Hofman, Laura, Satpathy, Ansuman T., Stadtmauer, Edward A., Cate, Jamie H.D., Eyquem, Justin, Fraietta, Joseph A., June, Carl H., Chang, Howard Y., Ye, Chun Jimmie, Doudna, Jennifer A.

Source: In Cell 12 October 2023 186(21):4567-4582

Polycomb-mediated genome architecture enables long-range spreading of H3K27 methylation

Authors: Kraft, Katerina, Yost, Kathryn E., Murphy, Sedona E., Magg, Andreas, Long, Yicheng, Corces, M. Ryan, Granja, Jeffrey M., Wittler, Lars, Mundlos, Stefan, Cech, Thomas R., Boettiger, Alistair N., Chang, Howard Y.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2022 May . 119(22), 1-10.

Access URL: https://www.jstor.org/stable/27152016

Macrophage inflammatory and regenerative response periodicity is programmed by cell cycle and chromatin state

Authors: Daniel, Bence, Belk, Julia A., Meier, Stefanie L., Chen, Andy Y., Sandor, Katalin, Czimmerer, Zsolt, Varga, Zsofia, Bene, Krisztian, Buquicchio, Frank A., Qi, Yanyan, Kitano, Hugo, Wheeler, Joshua R., Foster, Deshka S., Januszyk, Michael, Longaker, Michael T., Chang, Howard Y., Satpathy, Ansuman T.

Source: In Molecular Cell 5 January 2023 83(1):121-138

Integrated spatial multiomics reveals fibroblast fate during tissue repair

Authors: Foster, Deshka S., Januszyk, Michael, Yost, Kathryn E., Chinta, Malini S., Gulati, Gunsagar S., Nguyen, Alan T., Burcham, Austin R., Salhotra, Ankit, Ransom, R. Chase, Henn, Dominic, Chen, Kellen, Mascharak, Shamik, Tolentino, Karen, Titan, Ashley L., Jones, R. Ellen, da Silva, Oscar, Leavitt, W. Tripp, Marshall, Clement D., des Jardins-Park, Heather E., Hu, Michael S., Wan, Derrick C., Wernig, Gerlinde, Wagh, Dhananjay, Coller, John, Norton, Jeffrey A., Gurtner, Geoffrey C., Newman, Aaron M., Chang, Howard Y., Longaker, Michael T.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2021 Oct 01. 118(41), 1-10.

Access URL: https://www.jstor.org/stable/27093407

Engineered cell entry links receptor biology with single-cell genomics

Authors: Yu, Bingfei, Shi, Quanming, Belk, Julia A., Yost, Kathryn E., Parker, Kevin R., Li, Rui, Liu, Betty B., Huang, Huang, Lingwood, Daniel, Greenleaf, William J., Davis, Mark M., Satpathy, Ansuman T., Chang, Howard Y.

Source: In Cell 22 December 2022 185(26):4904-4920

Multiomic analysis reveals conservation of cancer-associated fibroblast phenotypes across species and tissue of origin

Authors: Foster, Deshka S., Januszyk, Michael, Delitto, Daniel, Yost, Kathryn E., Griffin, Michelle, Guo, Jason, Guardino, Nicholas, Delitto, Andrea E., Chinta, Malini, Burcham, Austin R., Nguyen, Alan T., Bauer-Rowe, Khristian E., Titan, Ashley L., Salhotra, Ankit, Jones, R. Ellen, da Silva, Oscar, Lindsay, Hunter G., Berry, Charlotte E., Chen, Kellen, Henn, Dominic, Mascharak, Shamik, Talbott, Heather E., Kim, Alexia, Nosrati, Fatemeh, Sivaraj, Dharshan, Ransom, R. Chase, Matthews, Michael, Khan, Anum, Wagh, Dhananjay, Coller, John, Gurtner, Geoffrey C., Wan, Derrick C., Wapnir, Irene L., Chang, Howard Y., Norton, Jeffrey A., Longaker, Michael T.

Source: In Cancer Cell 14 November 2022 40(11):1392-1406

Dynamic chromatin regulatory landscape of human CAR T cell exhaustion

Authors: Gennert, David G., Lynn, Rachel C., Granja, Jeff M., Weber, Evan W., Mumbach, Maxwell R., Zhao, Yang, Duren, Zhana, Sotillo, Elena, Greenleaf, William J., Wong, Wing H., Satpathy, Ansuman T., Mackall, Crystal L., Chang, Howard Y.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2021 Jul . 118(30), 1-12.

Access URL: https://www.jstor.org/stable/27052636

Single-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseases

Authors: Wang, Sean K., Nair, Surag, Li, Rui, Kraft, Katerina, Pampari, Anusri, Patel, Aman, Kang, Joyce B., Luong, Christy, Kundaje, Anshul, Chang, Howard Y.

Source: In Cell Genomics 10 August 2022 2(8)

The Mettl3 epitranscriptomic writer amplifies p53 stress responses

Authors: Raj, Nitin, Wang, Mengxiong, Seoane, Jose A., Zhao, Richard L., Kaiser, Alyssa M., Moonie, Nancie A., Demeter, Janos, Boutelle, Anthony M., Kerr, Craig H., Mulligan, Abigail S., Moffatt, Clare, Zeng, Shelya X., Lu, Hua, Barna, Maria, Curtis, Christina, Chang, Howard Y., Jackson, Peter K., Attardi, Laura D.

Source: In Molecular Cell 7 July 2022 82(13):2370-2384

Bidirectional epigenetic editing reveals hierarchies in gene regulation.

Authors: Pacalin, Naomi M., Steinhart, Zachary, Shi, Quanming, Belk, Julia A., Dorovskyi, Dmytro, Kraft, Katerina, Parker, Kevin R., Shy, Brian R., Marson, Alexander, Chang, Howard Y.

Source: Nature Biotechnology; Mar2025, Vol. 43 Issue 3, p355-368, 14p

MorPhiC Consortium: towards functional characterization of all human genes.

Authors: Adli, Mazhar, Przybyla, Laralynne, Burdett, Tony, Burridge, Paul W., Cacheiro, Pilar, Chang, Howard Y., Engreitz, Jesse M., Gilbert, Luke A., Greenleaf, William J., Hsu, Li, Huangfu, Danwei, Hung, Ling-Hong, Kundaje, Anshul, Li, Sheng, Parkinson, Helen, Qiu, Xiaojie, Robson, Paul, Schürer, Stephan C., Shojaie, Ali, Skarnes, William C.

Source: Nature; Feb2025, Vol. 638 Issue 8050, p351-359, 9p

Enhanced safety and efficacy of protease-regulated CAR-T cell receptors

Authors: Labanieh, Louai, Majzner, Robbie G., Klysz, Dorota, Sotillo, Elena, Fisher, Chris J., Vilches-Moure, José G., Pacheco, Kaithlen Zen B., Malipatlolla, Meena, Xu, Peng, Hui, Jessica H., Murty, Tara, Theruvath, Johanna, Mehta, Nishant, Yamada-Hunter, Sean A., Weber, Evan W., Heitzeneder, Sabine, Parker, Kevin R., Satpathy, Ansuman T., Chang, Howard Y., Lin, Michael Z., Cochran, Jennifer R., Mackall, Crystal L.

Source: In Cell 12 May 2022 185(10):1745-1763

Circular RNA migration in agarose gel electrophoresis

Authors: Abe, Brian T., Wesselhoeft, R. Alexander, Chen, Robert, Anderson, Daniel G., Chang, Howard Y.

Source: In Molecular Cell 5 May 2022 82(9):1768-1777

Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility

Authors: Meijer, Mandy, Agirre, Eneritz, Kabbe, Mukund, van Tuijn, Cassandra A., Heskol, Abeer, Zheng, Chao, Mendanha Falcão, Ana, Bartosovic, Marek, Kirby, Leslie, Calini, Daniela, Johnson, Michael R., Corces, M. Ryan, Montine, Thomas J., Chen, Xingqi, Chang, Howard Y., Malhotra, Dheeraj, Castelo-Branco, Gonçalo

Source: In Neuron 6 April 2022 110(7):1193-1210