Systematic comparison of single-cell and single-nucleus RNA-sequencing methods
Ding, Jiarui, Adiconis, Xian, Simmons, Sean K, Kowalczyk, Monika S, Hession, Cynthia C, Marjanovic, Nemanja D, Hughes, Travis K, Wadsworth, Marc H, Burks, Tyler, Nguyen, Lan T, Kwon, John Y H, Barak, Boaz, Ge, William, Kedaigle, Amanda J, Carroll, Shaina, Li, Shuqiang, Hacohen, Nir, Rozenblatt-Rosen, Orit, Shalek, Alex K, Villani, Alexandra-Chloé, Regev, Aviv, Levin, Joshua Z
Published in Nature biotechnology (01.06.2020)
Published in Nature biotechnology (01.06.2020)
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Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action
McFarland, James M, Paolella, Brenton R, Warren, Allison, Geiger-Schuller, Kathryn, Shibue, Tsukasa, Rothberg, Michael, Kuksenko, Olena, Colgan, William N, Jones, Andrew, Chambers, Emily, Dionne, Danielle, Bender, Samantha, Wolpin, Brian M, Ghandi, Mahmoud, Tirosh, Itay, Rozenblatt-Rosen, Orit, Roth, Jennifer A, Golub, Todd R, Regev, Aviv, Aguirre, Andrew J, Vazquez, Francisca, Tsherniak, Aviad
Published in Nature communications (27.08.2020)
Published in Nature communications (27.08.2020)
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Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity
Andrews, Tallulah S., Atif, Jawairia, Liu, Jeff C., Perciani, Catia T., Ma, Xue‐Zhong, Thoeni, Cornelia, Slyper, Michal, Eraslan, Gökcen, Segerstolpe, Asa, Manuel, Justin, Chung, Sai, Winter, Erin, Cirlan, Iulia, Khuu, Nicholas, Fischer, Sandra, Rozenblatt‐Rosen, Orit, Regev, Aviv, McGilvray, Ian D., Bader, Gary D., MacParland, Sonya A.
Published in Hepatology communications (01.04.2022)
Published in Hepatology communications (01.04.2022)
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Author Correction: Nuclei multiplexing with barcoded antibodies for single-nucleus genomics
Gaublomme, Jellert T., Li, Bo, McCabe, Cristin, Knecht, Abigail, Yang, Yiming, Drokhlyansky, Eugene, Van Wittenberghe, Nicholas, Waldman, Julia, Dionne, Danielle, Nguyen, Lan, De Jager, Philip L., Yeung, Bertrand, Zhao, Xinfang, Habib, Naomi, Rozenblatt-Rosen, Orit, Regev, Aviv
Published in Nature communications (02.11.2020)
Published in Nature communications (02.11.2020)
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The Human Cell Atlas: from vision to reality
Rozenblatt-Rosen, Orit, Stubbington, Michael J T, Regev, Aviv, Teichmann, Sarah A
Published in Nature (London) (26.10.2017)
Published in Nature (London) (26.10.2017)
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Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors
Villani, Alexandra-Chloé, Satija, Rahul, Reynolds, Gary, Sarkizova, Siranush, Shekhar, Karthik, Fletcher, James, Griesbeck, Morgane, Butler, Andrew, Zheng, Shiwei, Lazo, Suzan, Jardine, Laura, Dixon, David, Stephenson, Emily, Nilsson, Emil, Grundberg, Ida, McDonald, David, Filby, Andrew, Li, Weibo, De Jager, Philip L., Rozenblatt-Rosen, Orit, Lane, Andrew A., Haniffa, Muzlifah, Regev, Aviv, Hacohen, Nir
Published in Science (American Association for the Advancement of Science) (21.04.2017)
Published in Science (American Association for the Advancement of Science) (21.04.2017)
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The Human and Mouse Enteric Nervous System at Single-Cell Resolution
Drokhlyansky, Eugene, Smillie, Christopher S., Van Wittenberghe, Nicholas, Ericsson, Maria, Griffin, Gabriel K., Eraslan, Gokcen, Dionne, Danielle, Cuoco, Michael S., Goder-Reiser, Max N., Sharova, Tatyana, Kuksenko, Olena, Aguirre, Andrew J., Boland, Genevieve M., Graham, Daniel, Rozenblatt-Rosen, Orit, Xavier, Ramnik J., Regev, Aviv
Published in Cell (17.09.2020)
Published in Cell (17.09.2020)
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Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer
Puram, Sidharth V., Tirosh, Itay, Parikh, Anuraag S., Patel, Anoop P., Yizhak, Keren, Gillespie, Shawn, Rodman, Christopher, Luo, Christina L., Mroz, Edmund A., Emerick, Kevin S., Deschler, Daniel G., Varvares, Mark A., Mylvaganam, Ravi, Rozenblatt-Rosen, Orit, Rocco, James W., Faquin, William C., Lin, Derrick T., Regev, Aviv, Bernstein, Bradley E.
Published in Cell (14.12.2017)
Published in Cell (14.12.2017)
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A Cellular Taxonomy of the Bone Marrow Stroma in Homeostasis and Leukemia
Baryawno, Ninib, Przybylski, Dariusz, Kowalczyk, Monika S., Kfoury, Youmna, Severe, Nicolas, Gustafsson, Karin, Kokkaliaris, Konstantinos D., Mercier, Francois, Tabaka, Marcin, Hofree, Matan, Dionne, Danielle, Papazian, Ani, Lee, Dongjun, Ashenberg, Orr, Subramanian, Ayshwarya, Vaishnav, Eeshit Dhaval, Rozenblatt-Rosen, Orit, Regev, Aviv, Scadden, David T.
Published in Cell (13.06.2019)
Published in Cell (13.06.2019)
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A revised airway epithelial hierarchy includes CFTR-expressing ionocytes
Montoro, Daniel T, Haber, Adam L, Biton, Moshe, Vinarsky, Vladimir, Lin, Brian, Birket, Susan E, Yuan, Feng, Chen, Sijia, Leung, Hui Min, Villoria, Jorge, Rogel, Noga, Burgin, Grace, Tsankov, Alexander M, Waghray, Avinash, Slyper, Michal, Waldman, Julia, Nguyen, Lan, Dionne, Danielle, Rozenblatt-Rosen, Orit, Tata, Purushothama Rao, Mou, Hongmei, Shivaraju, Manjunatha, Bihler, Hermann, Mense, Martin, Tearney, Guillermo J, Rowe, Steven M, Engelhardt, John F, Regev, Aviv, Rajagopal, Jayaraj
Published in Nature (London) (01.08.2018)
Published in Nature (London) (01.08.2018)
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Interactions between cancer cells and immune cells drive transitions to mesenchymal-like states in glioblastoma
Hara, Toshiro, Chanoch-Myers, Rony, Mathewson, Nathan D., Myskiw, Chad, Atta, Lyla, Bussema, Lillian, Eichhorn, Stephen W., Greenwald, Alissa C., Kinker, Gabriela S., Rodman, Christopher, Gonzalez Castro, L. Nicolas, Wakimoto, Hiroaki, Rozenblatt-Rosen, Orit, Zhuang, Xiaowei, Fan, Jean, Hunter, Tony, Verma, Inder M., Wucherpfennig, Kai W., Regev, Aviv, Suvà, Mario L., Tirosh, Itay
Published in Cancer cell (14.06.2021)
Published in Cancer cell (14.06.2021)
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Cumulus provides cloud-based data analysis for large-scale single-cell and single-nucleus RNA-seq
Li, Bo, Gould, Joshua, Yang, Yiming, Sarkizova, Siranush, Tabaka, Marcin, Ashenberg, Orr, Rosen, Yanay, Slyper, Michal, Kowalczyk, Monika S, Villani, Alexandra-Chloé, Tickle, Timothy, Hacohen, Nir, Rozenblatt-Rosen, Orit, Regev, Aviv
Published in Nature methods (01.08.2020)
Published in Nature methods (01.08.2020)
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Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics
Ludwig, Leif S., Lareau, Caleb A., Ulirsch, Jacob C., Christian, Elena, Muus, Christoph, Li, Lauren H., Pelka, Karin, Ge, Will, Oren, Yaara, Brack, Alison, Law, Travis, Rodman, Christopher, Chen, Jonathan H., Boland, Genevieve M., Hacohen, Nir, Rozenblatt-Rosen, Orit, Aryee, Martin J., Buenrostro, Jason D., Regev, Aviv, Sankaran, Vijay G.
Published in Cell (07.03.2019)
Published in Cell (07.03.2019)
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Single-cell RNA-seq reveals cell type-specific molecular and genetic associations to lupus
Perez, Richard K, Gordon, M Grace, Subramaniam, Meena, Kim, Min Cheol, Hartoularos, George C, Targ, Sasha, Sun, Yang, Ogorodnikov, Anton, Bueno, Raymund, Lu, Andrew, Thompson, Mike, Rappoport, Nadav, Dahl, Andrew, Lanata, Cristina M, Matloubian, Mehrdad, Maliskova, Lenka, Kwek, Serena S, Li, Tony, Slyper, Michal, Waldman, Julia, Dionne, Danielle, Rozenblatt-Rosen, Orit, Fong, Lawrence, Dall'Era, Maria, Balliu, Brunilda, Regev, Aviv, Yazdany, Jinoos, Criswell, Lindsey A, Zaitlen, Noah, Ye, Chun Jimmie
Published in Science (American Association for the Advancement of Science) (08.04.2022)
Published in Science (American Association for the Advancement of Science) (08.04.2022)
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Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function
Eraslan, Gökcen, Drokhlyansky, Eugene, Anand, Shankara, Fiskin, Evgenij, Subramanian, Ayshwarya, Slyper, Michal, Wang, Jiali, Van Wittenberghe, Nicholas, Rouhana, John M, Waldman, Julia, Ashenberg, Orr, Lek, Monkol, Dionne, Danielle, Win, Thet Su, Cuoco, Michael S, Kuksenko, Olena, Tsankov, Alexander M, Branton, Philip A, Marshall, Jamie L, Greka, Anna, Getz, Gad, Segrè, Ayellet V, Aguet, François, Rozenblatt-Rosen, Orit, Ardlie, Kristin G, Regev, Aviv
Published in Science (American Association for the Advancement of Science) (13.05.2022)
Published in Science (American Association for the Advancement of Science) (13.05.2022)
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Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma
Patel, Anoop P., Tirosh, Itay, Trombetta, John J., Shalek, Alex K., Gillespie, Shawn M., Wakimoto, Hiroaki, Cahill, Daniel P., Nahed, Brian V., Curry, William T., Martuza, Robert L., Louis, David N., Rozenblatt-Rosen, Orit, Suvà, Mario L., Regev, Aviv, Bernstein, Bradley E.
Published in Science (American Association for the Advancement of Science) (20.06.2014)
Published in Science (American Association for the Advancement of Science) (20.06.2014)
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A single-cell landscape of high-grade serous ovarian cancer
Izar, Benjamin, Tirosh, Itay, Stover, Elizabeth H, Wakiro, Isaac, Cuoco, Michael S, Alter, Idan, Rodman, Christopher, Leeson, Rachel, Su, Mei-Ju, Shah, Parin, Iwanicki, Marcin, Walker, Sarah R, Kanodia, Abhay, Melms, Johannes C, Mei, Shaolin, Lin, Jia-Ren, Porter, Caroline B M, Slyper, Michal, Waldman, Julia, Jerby-Arnon, Livnat, Ashenberg, Orr, Brinker, Titus J, Mills, Caitlin, Rogava, Meri, Vigneau, Sébastien, Sorger, Peter K, Garraway, Levi A, Konstantinopoulos, Panagiotis A, Liu, Joyce F, Matulonis, Ursula, Johnson, Bruce E, Rozenblatt-Rosen, Orit, Rotem, Asaf, Regev, Aviv
Published in Nature medicine (01.08.2020)
Published in Nature medicine (01.08.2020)
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Acquired HER2 mutations in ER + metastatic breast cancer confer resistance to estrogen receptor-directed therapies
Nayar, Utthara, Cohen, Ofir, Kapstad, Christian, Cuoco, Michael S, Waks, Adrienne G, Wander, Seth A, Painter, Corrie, Freeman, Samuel, Persky, Nicole S, Marini, Lori, Helvie, Karla, Oliver, Nelly, Rozenblatt-Rosen, Orit, Ma, Cynthia X, Regev, Aviv, Winer, Eric P, Lin, Nancy U, Wagle, Nikhil
Published in Nature genetics (01.02.2019)
Published in Nature genetics (01.02.2019)
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The Human Cell Atlas
Regev, Aviv, Teichmann, Sarah A, Lander, Eric S, Amit, Ido, Benoist, Christophe, Birney, Ewan, Bodenmiller, Bernd, Campbell, Peter, Carninci, Piero, Clatworthy, Menna, Clevers, Hans, Deplancke, Bart, Dunham, Ian, Eberwine, James, Eils, Roland, Enard, Wolfgang, Farmer, Andrew, Fugger, Lars, Göttgens, Berthold, Hacohen, Nir, Haniffa, Muzlifah, Hemberg, Martin, Kim, Seung, Klenerman, Paul, Kriegstein, Arnold, Lein, Ed, Linnarsson, Sten, Lundberg, Emma, Lundeberg, Joakim, Majumder, Partha, Marioni, John C, Merad, Miriam, Mhlanga, Musa, Nawijn, Martijn, Netea, Mihai, Nolan, Garry, Pe'er, Dana, Phillipakis, Anthony, Ponting, Chris P, Quake, Stephen, Reik, Wolf, Rozenblatt-Rosen, Orit, Sanes, Joshua, Satija, Rahul, Schumacher, Ton N, Shalek, Alex, Shapiro, Ehud, Sharma, Padmanee, Shin, Jay W, Stegle, Oliver, Stratton, Michael, Stubbington, Michael J T, Theis, Fabian J, Uhlen, Matthias, van Oudenaarden, Alexander, Wagner, Allon, Watt, Fiona, Weissman, Jonathan, Wold, Barbara, Xavier, Ramnik, Yosef, Nir
Published in eLife (05.12.2017)
Published in eLife (05.12.2017)
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