The transcriptional repressor BLIMP1 enforces TCF-1-dependent and -independent restriction of the memory fate of CD8+ T cells
Maegan K Murphy, Matthew McCullen, Joshua L Deffenbaugh, Andy Y Chen, Joy Pai, Bence Daniel, Amir Yousif, Saravanan Raju, Sunnie Hsiung, Zhenxiao Wang, Hazem E Ghoneim, Ansuman T Satpathy, Marco Colonna, Eugene M Oltz, Takeshi Egawa
Immunity, 14 October 2025
Cell type-specific purifying selection of synonymous mitochondrial DNA variation
Caleb A Lareau, Patrick Maschmeyer, Yajie Yin, Jacob C Gutierrez, Ryan S Dhindsa, Anne-Sophie Gribling-Burrer, Sebastian Zielinski, Yu-Hsin Hsieh, Lena Nitsch, Veronika Dimitrova, Benan Nalbant, Frank A Buquicchio, Tsion Abay, Robert R Stickels, Jacob C Ulirsch, Patrick Yan, Fangyi Wang, Zhuang Miao, Katalin Sandor, Bence Daniel, Vincent Liu, Paul L Mendez, Petra Knaus, Manpreet Meyer, William J Greenleaf, Anshul Kundaje, Redmond P Smyth, Mathias Munschauer, Leif S Ludwig, Ansuman T Satpathy
PNAS, 29 July 2025
Massively parallel immunopeptidome by DNA sequencing provides insights into cancer antigen presentation
Quanming Shi, Elana P Simon, Cansu Cimen Bozkus, Anna Kaminska, Leandra Velazquez, Mansi Saxena, Zilin Zhang, Julia A Belk, Shuo Wang, Nuoya Yang, Yaowen Zhang, Ashley Kwong, Yonglu Che, Robert R Stickels, Charles R Crain, Laura Schmidt-Hong, Cheryl F Lichti, Gaurav D Gaiha, Theodore L Roth, Nina Bhardwaj, Ansuman T Satpathy, Bingfei Yu, Howard Y Chang
Nature Genetics, 28 July 2025
Clonal tracing with somatic epimutations reveals dynamics of blood ageing
Michael Scherer, Indranil Singh, Martina Maria Braun, Chelsea Szu-Tu, Pedro Sanchez Sanchez, Dominik Lindenhofer, Niels Asger Jakobsen, Verena Körber, Michael Kardorff, Lena Nitsch, Pauline Kautz, Julia Rühle, Agostina Bianchi, Luca Cozzuto, Robert Frömel, Sergi Beneyto-Calabuig, Caleb Lareau, Ansuman T Satpathy, Renée Beekman, Lars M Steinmetz, Simon Raffel, Leif S Ludwig, Paresh Vyas, Alejo Rodriguez-Fraticelli, Lars Velten
Nature, 21 May 2025
Induced B cell receptor diversity predicts PD-1 blockade immunotherapy response
Yonglu Che; Jinwoo Lee; Farah Abou-Taleb; Kerri E Rieger; Ansuman T Satpathy; Anne Lynn S Chang; Howard Y Chang
PNAS, 6 May 2025
Translation dysregulation in cancer as a source for targetable antigens
Chen Weller, Osnat Bartok, Christopher S McGinnis, Heyilimu Palashati, Tian-Gen Chang, Dmitry Malko, Merav D Shmueli, Asuteka Nagao, Deborah Hayoun, Ayaka Murayama, Yuriko Sakaguchi, Panagiotis Poulis, Aseel Khatib, Bracha Erlanger Avigdor, Sagi Gordon, Sapir Cohen Shvefel, Marie J Zemanek, Morten M Nielsen, Sigalit Boura-Halfon, Shira Sagie, Nofar Gumpert, Weiwen Yang, Dmitry Alexeev, Pelgia Kyriakidou, Winnie Yao, Mirie Zerbib, Polina Greenberg, Gil Benedek, Kevin Litchfield, Ekaterina Petrovich-Kopitman, Adi Nagler, Roni Oren, Shifra Ben-Dor, Yishai Levin, Yitzhak Pilpel, Marina Rodnina, Jürgen Cox, Yifat Merbl, Ansuman T Satpathy, Yaron Carmi, Florian Erhard, Tsutomu Suzuki, Allen R Buskirk, Johanna Olweus, Eytan Ruppin, Andreas Schlosser, Yardena Samuels
Cancer Cell, 21 March 2025
Non-viral intron knock-ins for targeted gene integration into human T cells and for T-cell selection
Theodore L Roth, Johnathan Lu, Alison McClellan, Courtney Kernick, Oliver Takacsi-Nagy, Ansuman T Satpathy
Nature Biomedical Engineering, 7 March 2025
Transcript-specific enrichment enables profiling of rare cell states via single-cell RNA sequencing
Tsion Abay, Robert R. Stickels, Meril T. Takizawa, Benan N. Nalbant, Yu-Hsin Hsieh, Sidney Hwang, Catherine Snopkowski, Kenny Kwok Hei Yu, Zaki Abou-Mrad, Viviane Tabar, Brooke E. Howitt, Leif S. Ludwig, Ronan Chaligné, Ansuman T. Satpathy & Caleb A. Lareau
Nature Genetics, 8 January 2025
Mechanism-guided engineering of a minimal biological particle for genome editing
Wayne Ngo; Julia Peukes; Alisha Baldwin; Zhiwei Wayne Xue; Sidney Hwang; Robert R Stickels; Zhi Lin; Ansuman T Satpathy; James A Wells; Randy Schekman; Eva Nogales; Jennifer A Doudna
PNAS, 7 January 2025
Multi-modal analysis reveals tumor and immune features distinguishing EBV-positive and EBV-negative post-transplant lymphoproliferative disorders
Jiaying Toh, Andrea J Reitsma, Tetsuya Tajima, Sheren F Younes, Chimere Ezeiruaku, Kayla C Jenkins, Josselyn K Peña, Shuchun Zhao, Xi Wang, Esmond Y Z Lee, Marla C Glass, Laurynas Kalesinskas, Ananthakrishnan Ganesan, Irene Liang, Joy A Pai, James T Harden, Francesco Vallania, Edward A Vizcarra, Govind Bhagat, Fiona E Craig, Steven H Swerdlow, Julie Morscio, Daan Dierickx, Thomas Tousseyn, Ansuman T Satpathy, Sheri M Krams, Yasodha Natkunam, Purvesh Khatri, Olivia M Martinez
Cell Reports Medicine, 17 December 2024