Castleman’s Disease. Association with System Scleroderma von Yagoda, A. V., Koroy, P. V., Kharchenko, D. P., Bondarenko, E. V.

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Deterministic and Stochastic Dynamics in Spinodal Decomposition of a Binary System von Kharchenko, D. O., Galenko, P. K., Lebedev, V. G.

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Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing von Usoskin, Dmitry, Furlan, Alessandro, Islam, Saiful, Abdo, Hind, Lönnerberg, Peter, Lou, Daohua, Hjerling-Leffler, Jens, Haeggström, Jesper, Kharchenko, Olga, Kharchenko, Peter V, Linnarsson, Sten, Ernfors, Patrik

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Dental cell type atlas reveals stem and differentiated cell types in mouse and human teeth von Krivanek, Jan, Soldatov, Ruslan A., Kastriti, Maria Eleni, Chontorotzea, Tatiana, Herdina, Anna Nele, Petersen, Julian, Szarowska, Bara, Landova, Marie, Matejova, Veronika Kovar, Holla, Lydie Izakovicova, Kuchler, Ulrike, Zdrilic, Ivana Vidovic, Vijaykumar, Anushree, Balic, Anamaria, Marangoni, Pauline, Klein, Ophir D., Neves, Vitor C. M., Yianni, Val, Sharpe, Paul T., Harkany, Tibor, Metscher, Brian D., Bajénoff, Marc, Mina, Mina, Fried, Kaj, Kharchenko, Peter V., Adameyko, Igor

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Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain von Kupari, Jussi, Usoskin, Dmitry, Parisien, Marc, Lou, Daohua, Hu, Yizhou, Fatt, Michael, Lönnerberg, Peter, Spångberg, Mats, Eriksson, Bengt, Barkas, Nikolaos, Kharchenko, Peter V., Loré, Karin, Khoury, Samar, Diatchenko, Luda, Ernfors, Patrik

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Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment von Kfoury, Youmna, Baryawno, Ninib, Severe, Nicolas, Mei, Shenglin, Gustafsson, Karin, Hirz, Taghreed, Brouse, Thomas, Scadden, Elizabeth W., Igolkina, Anna A., Kokkaliaris, Konstantinos, Choi, Bryan D., Barkas, Nikolas, Randolph, Mark A., Shin, John H., Saylor, Philip J., Scadden, David T., Sykes, David B., Kharchenko, Peter V.

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Multipotent peripheral glial cells generate neuroendocrine cells of the adrenal medulla von Furlan, Alessandro, Dyachuk, Vyacheslav, Kastriti, Maria Eleni, Calvo-Enrique, Laura, Abdo, Hind, Hadjab, Saida, Chontorotzea, Tatiana, Akkuratova, Natalia, Usoskin, Dmitry, Kamenev, Dmitry, Petersen, Julian, Sunadome, Kazunori, Memic, Fatima, Marklund, Ulrika, Fried, Kaj, Topilko, Piotr, Lallemend, Francois, Kharchenko, Peter V., Ernfors, Patrik, Adameyko, Igor

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Proximity-Based Differential Single-Cell Analysis of the Niche to Identify Stem/Progenitor Cell Regulators von Silberstein, Lev, Goncalves, Kevin A., Kharchenko, Peter V., Turcotte, Raphael, Kfoury, Youmna, Mercier, Francois, Baryawno, Ninib, Severe, Nicolas, Bachand, Jacqueline, Spencer, Joel A., Papazian, Ani, Lee, Dongjun, Chitteti, Brahmananda Reddy, Srour, Edward F., Hoggatt, Jonathan, Tate, Tiffany, Lo Celso, Cristina, Ono, Noriaki, Nutt, Stephen, Heino, Jyrki, Sipilä, Kalle, Shioda, Toshihiro, Osawa, Masatake, Lin, Charles P., Hu, Guo-fu, Scadden, David T.

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RNA velocity of single cells von La Manno, Gioele, Soldatov, Ruslan, Zeisel, Amit, Braun, Emelie, Hochgerner, Hannah, Petukhov, Viktor, Lidschreiber, Katja, Kastriti, Maria E., Lönnerberg, Peter, Furlan, Alessandro, Fan, Jean, Borm, Lars E., Liu, Zehua, van Bruggen, David, Guo, Jimin, He, Xiaoling, Barker, Roger, Sundström, Erik, Castelo-Branco, Gonçalo, Cramer, Patrick, Adameyko, Igor, Linnarsson, Sten, Kharchenko, Peter V.

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Dissecting the immune suppressive human prostate tumor microenvironment via integrated single-cell and spatial transcriptomic analyses von Hirz, Taghreed, Mei, Shenglin, Sarkar, Hirak, Kfoury, Youmna, Wu, Shulin, Verhoeven, Bronte M., Subtelny, Alexander O., Zlatev, Dimitar V., Wszolek, Matthew W., Salari, Keyan, Murray, Evan, Chen, Fei, Macosko, Evan Z., Wu, Chin-Lee, Scadden, David T., Dahl, Douglas M., Baryawno, Ninib, Saylor, Philip J., Kharchenko, Peter V., Sykes, David B.

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A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA von Lake, Blue B., Codeluppi, Simone, Yung, Yun C., Gao, Derek, Chun, Jerold, Kharchenko, Peter V., Linnarsson, Sten, Zhang, Kun

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Rapid Mobilization Reveals a Highly Engraftable Hematopoietic Stem Cell von Hoggatt, Jonathan, Singh, Pratibha, Tate, Tiffany A., Chou, Bin-Kuan, Datari, Shruti R., Fukuda, Seiji, Liu, Liqiong, Kharchenko, Peter V., Schajnovitz, Amir, Baryawno, Ninib, Mercier, Francois E., Boyer, Joseph, Gardner, Jason, Morrow, Dwight M., Scadden, David T., Pelus, Louis M.

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Spatiotemporal structure of cell fate decisions in murine neural crest von Soldatov, Ruslan, Kaucka, Marketa, Kastriti, Maria Eleni, Petersen, Julian, Chontorotzea, Tatiana, Englmaier, Lukas, Akkuratova, Natalia, Yang, Yunshi, Häring, Martin, Dyachuk, Viacheslav, Bock, Christoph, Farlik, Matthias, Piacentino, Michael L, Boismoreau, Franck, Hilscher, Markus M, Yokota, Chika, Qian, Xiaoyan, Nilsson, Mats, Bronner, Marianne E, Croci, Laura, Hsiao, Wen-Yu, Guertin, David A, Brunet, Jean-Francois, Consalez, Gian Giacomo, Ernfors, Patrik, Fried, Kaj, Kharchenko, Peter V, Adameyko, Igor

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A transcriptional metastatic signature predicts survival in clear cell renal cell carcinoma von Alchahin, Adele M., Mei, Shenglin, Tsea, Ioanna, Hirz, Taghreed, Kfoury, Youmna, Dahl, Douglas, Wu, Chin-Lee, Subtelny, Alexander O., Wu, Shulin, Scadden, David T., Shin, John H., Saylor, Philip J., Sykes, David B., Kharchenko, Peter V., Baryawno, Ninib

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An atlas of healthy and injured cell states and niches in the human kidney von Lake, Blue B., Menon, Rajasree, Winfree, Seth, Hu, Qiwen, Melo Ferreira, Ricardo, Kalhor, Kian, Barwinska, Daria, Otto, Edgar A., Ferkowicz, Michael, Diep, Dinh, Plongthongkum, Nongluk, Knoten, Amanda, Urata, Sarah, Mariani, Laura H., Naik, Abhijit S., Eddy, Sean, Zhang, Bo, Wu, Yan, Salamon, Diane, Williams, James C., Wang, Xin, Balderrama, Karol S., Hoover, Paul J., Murray, Evan, Marshall, Jamie L., Noel, Teia, Vijayan, Anitha, Hartman, Austin, Chen, Fei, Waikar, Sushrut S., Rosas, Sylvia E., Wilson, Francis P., Palevsky, Paul M., Kiryluk, Krzysztof, Sedor, John R., Toto, Robert D., Parikh, Chirag R., Kim, Eric H., Satija, Rahul, Greka, Anna, Macosko, Evan Z., Kharchenko, Peter V., Gaut, Joseph P., Hodgin, Jeffrey B., Eadon, Michael T., Dagher, Pierre C., El-Achkar, Tarek M., Zhang, Kun, Kretzler, Matthias, Jain, Sanjay

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Comparative cellular analysis of motor cortex in human, marmoset and mouse von Bakken, Trygve E., Jorstad, Nikolas L., Hu, Qiwen, Lake, Blue B., Tian, Wei, Kalmbach, Brian E., Crow, Megan, Hodge, Rebecca D., Krienen, Fenna M., Sorensen, Staci A., Eggermont, Jeroen, Yao, Zizhen, Aevermann, Brian D., Aldridge, Andrew I., Bartlett, Anna, Bertagnolli, Darren, Casper, Tamara, Crichton, Kirsten, Daigle, Tanya L., Dalley, Rachel, Dembrow, Nikolai, Diep, Dinh, Ding, Song-Lin, Fang, Rongxin, Fischer, Stephan, Goldman, Melissa, Goldy, Jeff, Graybuck, Lucas T., Herb, Brian R., Hou, Xiaomeng, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, Li, Yang Eric, Liu, Christine S., Lucero, Jacinta D., Mahurkar, Anup, McMillen, Delissa, Miller, Jeremy A., Moussa, Marmar, Nery, Joseph R., Nicovich, Philip R., Niu, Sheng-Yong, Orvis, Joshua, Osteen, Julia K., Owen, Scott, Palmer, Carter R., Pham, Thanh, Plongthongkum, Nongluk, Poirion, Olivier, Reed, Nora M., Rimorin, Christine, Rivkin, Angeline, Romanow, William J., Sedeño-Cortés, Adriana E., Siletti, Kimberly, Somasundaram, Saroja, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Wang, Xinxin, Xie, Fangming, Yanny, Anna Marie, Zhang, Renee, Ament, Seth A., Behrens, M. Margarita, Bravo, Hector Corrada, Chun, Jerold, Dobin, Alexander, Gillis, Jesse, Hertzano, Ronna, Hof, Patrick R., Höllt, Thomas, Horwitz, Gregory D., Keene, C. Dirk, Kharchenko, Peter V., Lelieveldt, Boudewijn P., Luo, Chongyuan, Mukamel, Eran A., Pinto-Duarte, António, Preissl, Sebastian, Regev, Aviv, Ren, Bing, Scheuermann, Richard H., Smith, Kimberly, Spain, William J., White, Owen R., Koch, Christof, Hawrylycz, Michael, Tasic, Bosiljka, Macosko, Evan Z., McCarroll, Steven A., Ting, Jonathan T., Zeng, Hongkui, Zhang, Kun, Feng, Guoping, Ecker, Joseph R., Linnarsson, Sten, Lein, Ed S.

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The immune cell atlas of human neuroblastoma von Verhoeven, Bronte Manouk, Mei, Shenglin, Olsen, Thale Kristin, Gustafsson, Karin, Valind, Anders, Lindström, Axel, Gisselsson, David, Fard, Shahrzad Shirazi, Hagerling, Catharina, Kharchenko, Peter V., Kogner, Per, Johnsen, John Inge, Baryawno, Ninib

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ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia von Landt, Stephen G, Marinov, Georgi K, Kundaje, Anshul, Kheradpour, Pouya, Pauli, Florencia, Batzoglou, Serafim, Bernstein, Bradley E, Bickel, Peter, Brown, James B, Cayting, Philip, Chen, Yiwen, DeSalvo, Gilberto, Epstein, Charles, Fisher-Aylor, Katherine I, Euskirchen, Ghia, Gerstein, Mark, Gertz, Jason, Hartemink, Alexander J, Hoffman, Michael M, Iyer, Vishwanath R, Jung, Youngsook L, Karmakar, Subhradip, Kellis, Manolis, Kharchenko, Peter V, Li, Qunhua, Liu, Tao, Liu, X Shirley, Ma, Lijia, Milosavljevic, Aleksandar, Myers, Richard M, Park, Peter J, Pazin, Michael J, Perry, Marc D, Raha, Debasish, Reddy, Timothy E, Rozowsky, Joel, Shoresh, Noam, Sidow, Arend, Slattery, Matthew, Stamatoyannopoulos, John A, Tolstorukov, Michael Y, White, Kevin P, Xi, Simon, Farnham, Peggy J, Lieb, Jason D, Wold, Barbara J, Snyder, Michael

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Single-cell analysis of immune and stroma cell remodeling in clear cell renal cell carcinoma primary tumors and bone metastatic lesions von Mei, Shenglin, Alchahin, Adele M, Tsea, Ioanna, Kfoury, Youmna, Hirz, Taghreed, Jeffries, Nathan Elias, Zhao, Ting, Xu, Yanxin, Zhang, Hanyu, Sarkar, Hirak, Wu, Shulin, Subtelny, Alexander O, Johnsen, John Inge, Zhang, Yida, Salari, Keyan, Wu, Chin-Lee, Randolph, Mark A, Scadden, David T, Dahl, Douglas M, Shin, John, Kharchenko, Peter V, Saylor, Philip J, Sykes, David B, Baryawno, Ninib

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Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE von Roy, Sushmita, Ernst, Jason, Kharchenko, Peter V, Kheradpour, Pouya, Negre, Nicolas, Eaton, Matthew L, Landolin, Jane M, Bristow, Christopher A, Ma, Lijia, Lin, Michael F, Washietl, Stefan, Arshinoff, Bradley I, Ay, Ferhat, Meyer, Patrick E, Robine, Nicolas, Washington, Nicole L, Di Stefano, Luisa, Berezikov, Eugene, Brown, Christopher D, Candeias, Rogerio, Carlson, Joseph W, Carr, Adrian, Jungreis, Irwin, Marbach, Daniel, Sealfon, Rachel, Tolstorukov, Michael Y, Will, Sebastian, Alekseyenko, Artyom A, Artieri, Carlo, Booth, Benjamin W, Brooks, Angela N, Dai, Qi, Davis, Carrie A, Duff, Michael O, Feng, Xin, Gorchakov, Andrey A, Gu, Tingting, Henikoff, Jorja G, Kapranov, Philipp, Li, Renhua, MacAlpine, Heather K, Malone, John, Minoda, Aki, Nordman, Jared, Okamura, Katsutomo, Perry, Marc, Powell, Sara K, Riddle, Nicole C, Sakai, Akiko, Samsonova, Anastasia, Sandler, Jeremy E, Schwartz, Yuri B, Sher, Noa, Spokony, Rebecca, Sturgill, David, van Baren, Marijke, Wan, Kenneth H, Yang, Li, Yu, Charles, Feingold, Elise, Good, Peter, Guyer, Mark, Lowdon, Rebecca, Ahmad, Kami, Andrews, Justen, Berger, Bonnie, Brenner, Steven E, Brent, Michael R, Cherbas, Lucy, Elgin, Sarah C.R, Gingeras, Thomas R, Grossman, Robert, Hoskins, Roger A, Kaufman, Thomas C, Kent, William, Kuroda, Mitzi I, Orr-Weaver, Terry, Perrimon, Norbert, Pirrotta, Vincenzo, Posakony, James W, Ren, Bing, Russell, Steven, Cherbas, Peter, Graveley, Brenton R, Lewis, Suzanna, Micklem, Gos, Oliver, Brian, Park, Peter J, Celniker, Susan E, Henikoff, Steven, Karpen, Gary H, Lai, Eric C, MacAlpine, David M, Stein, Lincoln D, White, Kevin P, Kellis, Manolis

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