Parsing the Interferon Transcriptional Network and Its Disease Associations von Mostafavi, Sara, Yoshida, Hideyuki, Moodley, Devapregasan, LeBoité, Hugo, Rothamel, Katherine, Raj, Towfique, Ye, Chun Jimmie, Chevrier, Nicolas, Zhang, Shen-Ying, Feng, Ting, Lee, Mark, Casanova, Jean-Laurent, Clark, James D., Hegen, Martin, Telliez, Jean-Baptiste, Hacohen, Nir, De Jager, Philip L., Regev, Aviv, Mathis, Diane, Benoist, Christophe

Volltext

Enhancing droplet-based single-nucleus RNA-seq resolution using the semi-supervised machine learning classifier DIEM von Alvarez, Marcus, Rahmani, Elior, Jew, Brandon, Garske, Kristina M., Miao, Zong, Benhammou, Jihane N., Ye, Chun Jimmie, Pisegna, Joseph R., Pietiläinen, Kirsi H., Halperin, Eran, Pajukanta, Päivi

Volltext

Optimized design of single-cell RNA sequencing experiments for cell-type-specific eQTL analysis von Mandric, Igor, Schwarz, Tommer, Majumdar, Arunabha, Hou, Kangcheng, Briscoe, Leah, Perez, Richard, Subramaniam, Meena, Hafemeister, Christoph, Satija, Rahul, Ye, Chun Jimmie, Pasaniuc, Bogdan, Halperin, Eran

Volltext

lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements von Gordon, M. Grace, Inoue, Fumitaka, Martin, Beth, Schubach, Max, Agarwal, Vikram, Whalen, Sean, Feng, Shiyun, Zhao, Jingjing, Ashuach, Tal, Ziffra, Ryan, Kreimer, Anat, Georgakopoulos-Soares, Ilias, Yosef, Nir, Ye, Chun Jimmie, Pollard, Katherine S., Shendure, Jay, Kircher, Martin, Ahituv, Nadav

Volltext

Multiplexed droplet single‐cell sequencing (Mux‐Seq) of normal and transplant kidney von Rashmi, Priyanka, Sur, Swastika, Sigdel, Tara K., Boada, Patrick, Schroeder, Andrew W., Damm, Izabella, Kretzler, Matthias, Hodgin, Jeff, Hartoularos, George, Jimmie Ye, Chun, Sarwal, Minnie M.

Volltext

CCR2 deficiency alters activation of microglia subsets in traumatic brain injury von Somebang, Kerri, Rudolph, Joshua, Imhof, Isabella, Li, Luyi, Niemi, Erene C., Shigenaga, Judy, Tran, Huy, Gill, T. Michael, Lo, Iris, Zabel, Brian A., Schmajuk, Gabriela, Wipke, Brian T., Gyoneva, Stefka, Jandreski, Luke, Craft, Michael, Benedetto, Gina, Plowey, Edward D., Charo, Israel, Campbell, James, Ye, Chun Jimmie, Panter, S. Scott, Nakamura, Mary C., Eckalbar, Walter, Hsieh, Christine L.

Volltext

Single-cell transcriptome analysis defines heterogeneity of the murine pancreatic ductal tree von Hendley, Audrey M., Rao, Arjun A., Leonhardt, Laura, Ashe, Sudipta, Smith, Jennifer A., Giacometti, Simone, Peng, Xianlu L., Jiang, Honglin, Berrios, David, Pawlak, Mathias, Li, Lucia Y., Lee, Jonghyun, Collisson, Eric A., Anderson, Mark S., Fragiadakis, Gabriela K., Yeh, Jen Jen, Ye, Chun Jimmie, Kim, Grace E., Weaver, Valerie M., Hebrok, Matthias

Volltext

CRISPR activation and interference screens decode stimulation responses in primary human T cells von Schmidt, Ralf, Steinhart, Zachary, Layeghi, Madeline, Freimer, Jacob W, Bueno, Raymund, Nguyen, Vinh Q, Blaeschke, Franziska, Ye, Chun Jimmie, Marson, Alexander

Volltext

Transcriptomic analysis of immune cells in a multi-ethnic cohort of systemic lupus erythematosus patients identifies ethnicity- and disease-specific expression signatures von Andreoletti, Gaia, Lanata, Cristina M., Trupin, Laura, Paranjpe, Ishan, Jain, Tia S., Nititham, Joanne, Taylor, Kimberly E., Combes, Alexis J., Maliskova, Lenka, Ye, Chun Jimmie, Katz, Patricia, Dall’Era, Maria, Yazdany, Jinoos, Criswell, Lindsey A., Sirota, Marina

Volltext

Functional genomics in inborn errors of immunity von Hurabielle, Charlotte, LaFlam, Taylor N., Gearing, Melissa, Ye, Chun Jimmie

Volltext

Single-Cell RNA Sequencing of Lymph Node Stromal Cells Reveals Niche-Associated Heterogeneity von Rodda, Lauren B., Lu, Erick, Bennett, Mariko L., Sokol, Caroline L., Wang, Xiaoming, Luther, Sanjiv A., Barres, Ben A., Luster, Andrew D., Ye, Chun Jimmie, Cyster, Jason G.

Volltext

Single-cell eQTL mapping identifies cell type-specific genetic control of autoimmune disease von Yazar, Seyhan, Alquicira-Hernandez, Jose, Wing, Kristof, Senabouth, Anne, Gordon, M Grace, Andersen, Stacey, Lu, Qinyi, Rowson, Antonia, Taylor, Thomas R P, Clarke, Linda, Maccora, Katia, Chen, Christine, Cook, Anthony L, Ye, Chun Jimmie, Fairfax, Kirsten A, Hewitt, Alex W, Powell, Joseph E

Volltext

Single-cell RNA-seq reveals cell type-specific molecular and genetic associations to lupus von 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

Volltext

A Genome-wide CRISPR Screen in Primary Immune Cells to Dissect Regulatory Networks von Parnas, Oren, Jovanovic, Marko, Eisenhaure, Thomas M., Herbst, Rebecca H., Dixit, Atray, Ye, Chun Jimmie, Przybylski, Dariusz, Platt, Randall J., Tirosh, Itay, Sanjana, Neville E., Shalem, Ophir, Satija, Rahul, Raychowdhury, Raktima, Mertins, Philipp, Carr, Steven A., Zhang, Feng, Hacohen, Nir, Regev, Aviv

Volltext

Obesity alters pathology and treatment response in inflammatory disease von Bapat, Sagar P., Whitty, Caroline, Mowery, Cody T., Liang, Yuqiong, Yoo, Arum, Jiang, Zewen, Peters, Michael C., Zhang, Ling-juan, Vogel, Ian, Zhou, Carmen, Nguyen, Vinh Q., Li, Zhongmei, Chang, Christina, Zhu, Wandi S., Hastie, Annette T., He, Helen, Ren, Xin, Qiu, Wenli, Gayer, Sarah G., Liu, Chang, Choi, Eun Jung, Fassett, Marlys, Cohen, Jarish N., Sturgill, Jamie L., Crotty Alexander, Laura E., Suh, Jae Myoung, Liddle, Christopher, Atkins, Annette R., Yu, Ruth T., Downes, Michael, Liu, Sihao, Nikolajczyk, Barbara S., Lee, In-Kyu, Guttman-Yassky, Emma, Ansel, K. Mark, Woodruff, Prescott G., Fahy, John V., Sheppard, Dean, Gallo, Richard L., Ye, Chun Jimmie, Evans, Ronald M., Zheng, Ye, Marson, Alexander

Volltext

Intersection of population variation and autoimmunity genetics in human T cell activation von Ye, Chun Jimmie, Feng, Ting, Kwon, Ho-Keun, Raj, Towfique, Wilson, Michael, Asinovski, Natasha, McCabe, Cristin, Lee, Michelle H., Frohlich, Irene, Paik, Hyun-il, Zaitlen, Noah, Hacohen, Nir, Stranger, Barbara, De Jager, Philip, Mathis, Diane, Regev, Aviv, Benoist, Christophe

Volltext

Current genomic deep learning models display decreased performance in cell type-specific accessible regions von Kathail, Pooja, Shuai, Richard W, Chung, Ryan, Ye, Chun Jimmie, Loeb, Gabriel B, Ioannidis, Nilah M

Volltext

SCITO-seq: single-cell combinatorial indexed cytometry sequencing von Hwang, Byungjin, Lee, David S., Tamaki, Whitney, Sun, Yang, Ogorodnikov, Anton, Hartoularos, George C., Winters, Aidan, Yeung, Bertrand Z., Nazor, Kristopher L., Song, Yun S., Chow, Eric D., Spitzer, Matthew H., Ye, Chun Jimmie

Volltext

Functional CRISPR dissection of gene networks controlling human regulatory T cell identity von Schumann, Kathrin, Raju, Siddharth S., Lauber, Michael, Kolb, Saskia, Shifrut, Eric, Cortez, Jessica T., Skartsis, Nikolaos, Nguyen, Vinh Q., Woo, Jonathan M., Roth, Theodore L., Yu, Ruby, Nguyen, Michelle L. T., Simeonov, Dimitre R., Nguyen, David N., Targ, Sasha, Gate, Rachel E., Tang, Qizhi, Bluestone, Jeffrey A., Spitzer, Matthew H., Ye, Chun Jimmie, Marson, Alexander

Volltext

Multi-context genetic modeling of transcriptional regulation resolves novel disease loci von Thompson, Mike, Gordon, Mary Grace, Lu, Andrew, Tandon, Anchit, Halperin, Eran, Gusev, Alexander, Ye, Chun Jimmie, Balliu, Brunilda, Zaitlen, Noah

Volltext