MAGGIE: leveraging genetic variation to identify DNA sequence motifs mediating transcription factor binding and function

por Shen, Zeyang, Hoeksema, Marten A, Ouyang, Zhengyu, Benner, Christopher, Glass, Christopher K
Publicado 2020

Discerning mechanistically rewired biological pathways by cumulative interaction heterogeneity statistics

por Cotton, Travis B., Nguyen, Hien H., Said, Joseph I., Ouyang, Zhengyu, Zhang, Jinfa, Song, Mingzhou
Publicado 2015

Cooperation between cGAS and RIG-I sensing pathways enables improved innate recognition of HIV-1 by myeloid dendritic cells in elite controllers

por Martin-Gayo, Enrique, Gao, Ce, Calvet-Mirabent, Marta, Ouyang, Zhengyu, Lichterfeld, Mathias, Yu, Xu G.
Publicado 2022

Recommendations of scRNA-seq Differential Gene Expression Analysis Based on Comprehensive Benchmarking

por Gagnon, Jake, Pi, Lira, Ryals, Matthew, Wan, Qingwen, Hu, Wenxing, Ouyang, Zhengyu, Zhang, Baohong, Li, Kejie
Publicado 2022

Potent Cell-Intrinsic Immune Responses in Dendritic Cells Facilitate HIV-1-Specific T Cell Immunity in HIV-1 Elite Controllers

por Martin-Gayo, Enrique, Buzon, Maria Jose, Ouyang, Zhengyu, Hickman, Taylor, Cronin, Jacqueline, Pimenova, Dina, Walker, Bruce D., Lichterfeld, Mathias, Yu, Xu G.
Publicado 2015

Transcriptomic and epigenetic mechanisms underlying myeloid diversity in the lung

por Sajti, Eniko, Link, Verena M., Ouyang, Zhengyu, Spann, Nathanael J., Westin, Emma, Romanoski, Casey E., Fonseca, Gregory J., Prince, Lawrence S., Glass, Christopher K.
Publicado 2020

Transcriptional Changes in CD8(+) T Cells During Antiretroviral Therapy Intensified With Raltegravir

por Ouyang, Zhengyu, Buzon, Maria J., Zheng, Lu, Sun, Hong, Yu, Xu G., Bosch, Ronald J., Mellors, John W., Eron, Joseph J., Gandhi, Rajesh T., Lichterfeld, Mathias
Publicado 2015

Plasma Levels of Complement Factor I and C4b Peptides Are Associated with HIV Suppression

por Wu, Boyue, Ouyang, Zhengyu, Lyon, Christopher J., Zhang, Wei, Clift, Tori, Bone, Christopher R., Li, Boan, Zhao, Zhen, Kimata, Jason T., Yu, Xu G., Hu, Ye
Publicado 2017

Immunological Fingerprints of Controllers Developing Neutralizing HIV-1 Antibodies

por Martin-Gayo, Enrique, Gao, Ce, Chen, Hsiao Rong, Ouyang, Zhengyu, Kim, Dhohyung, Kolb, Kellie E., Shalek, Alex K., Walker, Bruce D., Lichterfeld, Mathias, Yu, Xu G.
Publicado 2020

Immune-profiling of ZIKV-infected patients identifies a distinct function of plasmacytoid dendritic cells for immune cross-regulation

por Sun, Xiaoming, Hua, Stephane, Gao, Ce, Blackmer, Jane E., Ouyang, Zhengyu, Ard, Kevin, Ciaranello, Andrea, Yawetz, Sigal, Sax, Paul E., Rosenberg, Eric S., Lichterfeld, Mathias, Yu, Xu G.
Publicado 2020

Characterizing the composition of iPSC derived cells from bulk transcriptomics data with CellMap

por Ouyang, Zhengyu, Bourgeois-Tchir, Nathanael, Lyashenko, Eugenia, Cundiff, Paige E., Cullen, Patrick F., Challa, Ravi, Li, Kejie, Zhang, Xinmin, Casey, Fergal, Engle, Sandra J., Zhang, Baohong, Zavodszky, Maria I.
Publicado 2022

A Reproducibility-Based Computational Framework Identifies an Inducible, Enhanced Antiviral State in Dendritic Cells from HIV-1 Elite Controllers

por Martin-Gayo, Enrique, Cole, Michael B., Kolb, Kellie E., Ouyang, Zhengyu, Cronin, Jacqueline, Kazer, Samuel W., Ordovas-Montanes, Jose, Lichterfeld, Mathias, Walker, Bruce D., Yosef, Nir, Shalek, Alex K., Yu, Xu G.
Publicado 2018

Treatment of HIV-Infected Individuals with the Histone Deacetylase Inhibitor Panobinostat Results in Increased Numbers of Regulatory T Cells and Limits Ex Vivo Lipopolysaccharide-I...

por Brinkmann, Christel Rothe, Højen, Jesper Falkesgaard, Rasmussen, Thomas Aagaard, Kjær, Anne Sofie, Olesen, Rikke, Denton, Paul W., Østergaard, Lars, Ouyang, Zhengyu, Lichterfeld, Mathias, Yu, Xu, Søgaard, Ole Schmeltz, Dinarello, Charles, Tolstrup, Martin
Publicado 2018

Integrated single-cell transcriptomics of cerebrospinal fluid cells in treatment-naïve multiple sclerosis

por Straeten, Frederike, Zhu, Jing, Börsch, Anna-Lena, Zhang, Baohong, Li, Kejie, Lu, I-Na, Gross, Catharina, Heming, Michael, Li, Xiaolin, Rubin, Rebekah, Ouyang, Zhengyu, Wiendl, Heinz, Mingueneau, Michael, Meyer zu Hörste, Gerd
Publicado 2022

Systemic Influences of Mammary Cancer on Monocytes in Mice

por Robinson, Amy, Burgess, Matthew, Webb, Sheila, Louwe, Pieter A., Ouyang, Zhengyu, Skola, Dylan, Han, Claudia Z., Batada, Nizar N., González-Huici, Víctor, Cassetta, Luca, Glass, Chris K., Jenkins, Stephen J., Pollard, Jeffery W.
Publicado 2022

Cx3cr1-deficient microglia exhibit a premature aging transcriptome

por Gyoneva, Stefka, Hosur, Raghavendra, Gosselin, David, Zhang, Baohong, Ouyang, Zhengyu, Cotleur, Anne C, Peterson, Michael, Allaire, Norm, Challa, Ravi, Cullen, Patrick, Roberts, Chris, Miao, Kelly, Reynolds, Taylor L, Glass, Christopher K, Burkly, Linda, Ransohoff, Richard M
Publicado 2019

HIV-1 persistence in CD4(+) T cells with stem cell-like properties

por Buzon, Maria J., Sun, Hong, Li, Chun, Shaw, Amy, Seiss, Katherine, Ouyang, Zhengyu, Martin-Gayo, Enrique, Leng, Jin, Henrich, Timothy J., Li, Jonathan Z., Pereyra, Florencia, Zurakowski, Ryan, Walker, Bruce D., Rosenberg, Eric S., Yu, Xu G., Lichterfeld, Mathias
Publicado 2014

scRNASequest: an ecosystem of scRNA-seq analysis, visualization, and publishing

por Li, Kejie, Sun, Yu H., Ouyang, Zhengyu, Negi, Soumya, Gao, Zhen, Zhu, Jing, Wang, Wanli, Chen, Yirui, Piya, Sarbottam, Hu, Wenxing, Zavodszky, Maria I., Yalamanchili, Hima, Cao, Shaolong, Gehrke, Andrew, Sheehan, Mark, Huh, Dann, Casey, Fergal, Zhang, Xinmin, Zhang, Baohong
Publicado 2023

Brain expression quantitative trait locus and network analyses reveal downstream effects and putative drivers for brain-related diseases

por de Klein, Niek, Tsai, Ellen A., Vochteloo, Martijn, Baird, Denis, Huang, Yunfeng, Chen, Chia-Yen, van Dam, Sipko, Oelen, Roy, Deelen, Patrick, Bakker, Olivier B., El Garwany, Omar, Ouyang, Zhengyu, Marshall, Eric E., Zavodszky, Maria I., van Rheenen, Wouter, Bakker, Mark K., Veldink, Jan, Gaunt, Tom R., Runz, Heiko, Franke, Lude, Westra, Harm-Jan
Publicado 2023

ALS/FTD-Linked Mutation in FUS Suppresses Intra-axonal Protein Synthesis and Drives Disease Without Nuclear Loss-of-Function of FUS

por López-Erauskin, Jone, Tadokoro, Takahiro, Baughn, Michael W., Myers, Brian, McAlonis-Downes, Melissa, Chillon-Marinas, Carlos, Asiaban, Joshua N., Artates, Jonathan, Bui, Anh T., Vetto, Anne P., Lee, Sandra K., Le, Ai Vy, Sun, Ying, Jambeau, Mélanie, Boubaker, Jihane, Swing, Deborah, Qiu, Jinsong, Hicks, Geoffrey G., Ouyang, Zhengyu, Fu, Xiang-Dong, Tessarollo, Lino, Ling, Shuo-Chien, Parone, Philippe A., Shaw, Christopher E., Marsala, Martin, Lagier-Tourenne, Clotilde, Cleveland, Don W., Da Cruz, Sandrine
Publicado 2018