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Single- cell analysis of treatment- resistant prostate cancer: Implications of cell state changes for cell surface antigen- targeted therapies Zaidi, Samir; Park, Jooyoung; Chan, Joseph M.; Roudier, Martine P.; Zhao, Jimmy L.; Gopalan, Anuradha; Wadosky, Kristine M.; Patel, Radhika A.; Sayar, Erolcan; Karthaus, Wouter R.; Kates, D. Henry; Chaudhary, Ojasvi; Xu, Tianhao; Masilionis, Ignas; Mazutis, Linas; Chaligne, Ronan; Obradovic, Aleksandar; Linkov, Irina; Barlas, Afsar; Jungbluth, Achim A.; Rekhtman, Natasha; Silber, Joachim; Manova-Todorova, Katia; Watson, Philip A.; True, Lawrence D.; Morrissey, Colm; Scher, Howard I.; Rathkopf, Dana E.; Morris, Michael J.; Goodrich, David W.; Choi, Jungmin; Nelson, Peter S.; Haffner, Michael C.; Sawyers, Charles L. Share Save
Childhood cancer mutagenesis caused by transposase-derived PGBD5 Yamada, Makiko; Keller, Ross R.; Gutierrez, Rodrigo Lopez; Cameron, Daniel; Suzuki, Hiromichi; Sanghrajka, Reeti; Vaynshteyn, Jake; Gerwin, Jeffrey; Maura, Francesco; Hooper, William; Shah, Minita; Robine, Nicolas; Demarest, Phillip; Bayin, N. Sumru; Zapater, Luz Jubierre; Reed, Casie; Hebert, Steven; Masilionis, Ignas; Chaligne, Ronan; Socci, Nicholas D.; Taylor, Michael D.; Kleinman, Claudia L.; Joyner, Alexandra L.; Raju, G. Praveen; Kentsis, Alex Share Save
Automated preparation of single nuclei from FFPE samples for snRNA-Seq Jovanovich, Stevan; Pereira, Nate; Meyer, Danielle; Snopkowski, Catherine; Masilionis, Ignas; Meskauskaite, Brigita; Takizawa, Meril; Abou-Mrad, Zaki; Yu, Kenny; Tabar, Viviane; Luckett, Kathleen; Ganesh, Karuna; Khan, Nabiha; Chaligne, Ronan Share Save
Tissue-specific features of the T cell repertoire after allogeneic hematopoietic cell transplantation in human and mouse DeWolf, Susan; Elhanati, Yuval; Nichols, Katherine; Waters, Nicholas R.; Nguyen, Chi L.; Slingerland, John B.; Rodriguez, Natasia; Lyudovyk, Olga; Giardina, Paul A.; Kousa, Anastasia I.; Andrlova, Hana; Ceglia, Nick; Fei, Teng; Kappagantula, Rajya; Li, Yanyun; Aleynick, Nathan; Baez, Priscilla; Murali, Rajmohan; Hayashi, Akimasa; Lee, Nicole; Gipson, Brianna; Rangesa, Madhumitha; Katsamakis, Zoe; Dai, Anqi; Blouin, Amanda G.; Arcila, Maria; Masilionis, Ignas; Chaligne, Ronan; Ponce, Doris M.; Landau, Heather J.; Politikos, Ioannis; Tamari, Roni; Hanash, Alan M.; Jenq, Robert R.; Giralt, Sergio A.; Markey, Kate A.; Zhang, Yanming; Perales, Miguel-Angel; Socci, Nicholas D.; Greenbaum, Benjamin D.; Iacobuzio-Donahue, Christine A.; Hollmann, Travis J.; van den Brink, Marcel R. M.; Peled, Jonathan U. Share Save
ERG-driven luminal prostate cancers emerge from Ck5+/Nkx3.1+basal cells Feng, Weiran; Ladewig, Erik; Salsabeel, Nazifa; Zhao, Huiyong; Lee, Young Sun; Gopalan, Anuradha; Luo, Hanzhi; Kang, Wenfei; Fan, Ning; Rosiek, Eric; Masilionis, Ignas; Manova-Todorova, Katia; Chaligne, Ronan; de Stanchina, Elisa; Carver, Brett S.; Chen, Yu; Gao, Dong; Leslie, Christina S.; Sawyers, Charles L. Share Save
Single-cell transcriptomic profiling of SCLC transformation reveals increased intratumoral diversity of variant and non-neuroendocrine subtypes Chan, Joseph Minhow; Quintanal-Villalonga, Alvaro; Sabet, Amin; Manoj, Parvathy; Chaudhary, Ojasvi; Xu, Tianhao; Masilionis, Ignas; Egger, Jacklynn; Sohail, Noor; Chun, Jaeyoung; Nawy, Tal; Mazutis, Linas; Sen, Triparna; Chaligne, Ronan; Yu, Helena; Pe'er, Dana; Rudin, Charles Share Save
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SEACells infers transcriptional and epigenomic cellular states from single-cell genomics data Persad, Sitara; Choo, Zi-Ning; Dien, Christine; Sohail, Noor; Masilionis, Ignas; Chaligne, Ronan; Nawy, Tal; Brown, Chrysothemis C. C.; Sharma, Roshan; Pe'er, Itsik; Setty, Manu; Pe'er, Dana Share Save
Application of high-throughput single-nucleus DNA sequencing in pancreatic cancer Zhang, Haochen; Karnoub, Elias-Ramzey; Umeda, Shigeaki; Chaligne, Ronan; Masilionis, Ignas; McIntyre, Caitlin A.; Sashittal, Palash; Hayashi, Akimasa; Zucker, Amanda; Mullen, Katelyn; Hong, Jungeui; Makohon-Moore, Alvin; Iacobuzio-Donahue, Christine A. Share Save
MAIT and Vδ2 unconventional T cells are supported by a diverse intestinal microbiome and correlate with favorable patient outcome after allogeneic HCT Andrlova, Hana; Miltiadous, Oriana; Kousa, Anastasia, I; Dai, Anqi; DeWolf, Susan; Violante, Sara; Park, Hee-Yon; Janaki-Raman, Sudha; Gardner, Rui; El Daker, Sary; Slingerland, John; Giardina, Paul; Clurman, Annelie; Gomes, Antonio L. C.; Nguyen, Chi; da Silva, Marina Burgos; Armijo, Gabriel K.; Lee, Nicole; Zappasodi, Roberta; Chaligne, Ronan; Masilionis, Ignas; Fontana, Emily; Ponce, Doris; Cho, Christina; Bush, Amy; Hill, Lauren; Chao, Nelson; Sung, Anthony D.; Giralt, Sergio; Vidal, Esther H.; Hosszu, Kinga K.; Devlin, Sean M.; Peled, Jonathan U.; Cross, Justin R.; Perales, Miguel-Angel; Godfrey, Dale, I; van den Brink, Marcel R. M.; Markey, Kate A. Share Save
Loss of polycomb repressive complex 1 activity and chromosomal instability drive uveal melanoma progression Bakhoum, Mathieu F.; Francis, Jasmine H.; Agustinus, Albert; Earlie, Ethan M.; Di Bona, Melody; Abramson, David H.; Duran, Mercedes; Masilionis, Ignas; Molina, Elsa; Shoushtari, Alexander N.; Goldbaum, Michael H.; Mischel, Paul S.; Bakhoum, Samuel F.; Laughney, Ashley M. Share Save
L1CAM defines the regenerative origin of metastasis-initiating cells in colorectal cancer (vol 1, pg 28, 2020) Ganesh, Karuna; Basnet, Harihar; Kaygusuz, Yasemin; Laughney, Ashley M.; He, Lan; Sharma, Roshan; O'Rourke, Kevin P.; Reuter, Vincent P.; Huang, Yun-Han; Turkekul, Mesruh; Er, Ekrem Emrah; Masilionis, Ignas; Manova-Todorova, Katia; Weiser, Martin R.; Saltz, Leonard B.; Garcia-Aguilar, Julio; Koche, Richard; Lowe, Scott W.; Pe'er, Dana; Shia, Jinru; Massague, Joan Share Save
Acquired stemness by luminal cells Karthaus, Wouter; Hofree, Matan; Choi, Danielle; Linton, Eliot L.; Turkekul, Mesruh; Bejnood, Alborz; Carver, Brett; Gopalan, Anuhandra; Laudone, Vincent; Biton, Moshe; Chaudhary, Ojasvi; Masilionis, Ignas; Mazutis, Linas; Pe'er, Dana; Regev, Aviv; Sawyers, Charles Share Save
Adult Human Glioblastomas Harbor Radial Glia-like Cells Wang, Rong; Sharma, Roshan; Shen, Xiaojuan; Laughney, Ashley M.; Funato, Kosuke; Clark, Philip J.; Shpokayte, Monika; Morgenstern, Peter; Navare, Monalisa; Xu, Yichi; Harbi, Shaghayegh; Masilionis, Ignas; Nanjangud, Gouri; Yang, Yanhong; Duran-Rehbein, Gabriel; Hemberg, Martin; Pe'er, Dana; Tabar, Viviane Share Save
Regenerative lineages and immune-mediated pruning in lung cancer metastasis Laughney, Ashley M.; Hu, Jing; Campbell, Nathaniel R.; Bakhoum, Samuel F.; Setty, Manu; Lavallee, Vincent-Philippe; Xie, Yubin; Masilionis, Ignas; Carr, Ambrose J.; Kottapalli, Sanjay; Allaj, Viola; Mattar, Marissa; Rekhtman, Natasha; Xavier, Joao B.; Mazutisz, Linas; Poirier, John T.; Rudin, Charles M.; Pe'er, Dana; Massague, Joan Share Save
Adult Human Glioblastomas Harbor Radial Glia-like Cells Wang, Rong; Sharma, Roshan; Shen, Xiaojuan; Laughney, Ashley M.; Funato, Kosuke; Clark, Philip J.; Shpokayte, Monika; Morgenstern, Peter; Navare, Monalisa; Xu, Yichi; Harbi, Shaghayegh; Masilionis, Ignas; Nanjangud, Gouri; Yang, Yanhong; Duran-Rehbein, Gabriel; Hemberg, Martin; Pe'er, Dana; Tabar, Viviane Share Save
L1CAM defines the regenerative origin of metastasis-initiating cells in colorectal cancer Ganesh, Karuna; Basnet, Harihar; Kaygusuz, Yasemin; Laughney, Ashley M.; He, Lan; Sharma, Roshan; O'Rourke, Kevin P.; Reuter, Vincent P.; Huang, Yun-Han; Turkekul, Mesruh; Er, Ekrem Emrah; Masilionis, Ignas; Manova-Todorova, Katia; Weiser, Martin R.; Saltz, Leonard B.; Garcia-Aguilar, Julio; Koche, Richard; Lowe, Scott W.; Pe'er, Dana; Shia, Jinru; Massague, Joan Share Save
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