Niche-Specific Reprogramming of Epigenetic Landscapes Drives Myeloid Cell Diversity in Nonalcoholic Steatohepatitis von Seidman, Jason S., Troutman, Ty D., Sakai, Mashito, Gola, Anita, Spann, Nathanael J., Bennett, Hunter, Bruni, Cassi M., Ouyang, Zhengyu, Li, Rick Z., Sun, Xiaoli, Vu, BaoChau T., Pasillas, Martina P., Ego, Kaori M., Gosselin, David, Link, Verena M., Chong, Ling-Wa, Evans, Ronald M., Thompson, Bonne M., McDonald, Jeffrey G., Hosseini, Mojgan, Witztum, Joseph L., Germain, Ronald N., Glass, Christopher K.

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Transcriptomic and epigenetic mechanisms underlying myeloid diversity in the lung von Sajti, Eniko, Link, Verena M., Ouyang, Zhengyu, Spann, Nathanael J., Westin, Emma, Romanoski, Casey E., Fonseca, Gregory J., Prince, Lawrence S., Glass, Christopher K.

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Transient genomic instability drives tumorigenesis through accelerated clonal evolution von Shoshani, Ofer, Bakker, Bjorn, de Haan, Lauren, Tijhuis, Andrea E., Wang, Yin, Kim, Dong Hyun, Maldonado, Marcus, Demarest, Matthew A., Artates, Jon, Zhengyu, Ouyang, Mark, Adam, Wardenaar, Rene, Sasik, Roman, Spierings, Diana C. J., Vitre, Benjamin, Fisch, Kathleen, Foijer, Floris, Cleveland, Don W.

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Chronic Peripheral Inflammation Causes a Region-Specific Myeloid Response in the Central Nervous System von Süß, Patrick, Hoffmann, Alana, Rothe, Tobias, Ouyang, Zhengyu, Baum, Wolfgang, Staszewski, Ori, Schett, Georg, Prinz, Marco, Krönke, Gerhard, Glass, Christopher K., Winkler, Jürgen, Schlachetzki, Johannes C.M.

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

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Transcriptional Changes during Naturally Acquired Zika Virus Infection Render Dendritic Cells Highly Conducive to Viral Replication von Sun, Xiaoming, Hua, Stephane, Chen, Hsiao-Rong, Ouyang, Zhengyu, Einkauf, Kevin, Tse, Samantha, Ard, Kevin, Ciaranello, Andrea, Yawetz, Sigal, Sax, Paul, Rosenberg, Eric S., Lichterfeld, Mathias, Yu, Xu G.

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MAGGIE: leveraging genetic variation to identify DNA sequence motifs mediating transcription factor binding and function von Shen, Zeyang, Hoeksema, Marten A., Ouyang, Zhengyu, Benner, Christopher, Glass, Christopher K.

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Pegylated Interferon-α-Induced Natural Killer Cell Activation Is Associated With Human Immunodeficiency Virus-1 DNA Decline in Antiretroviral Therapy-Treated HIV-1/Hepatitis C Viru... von Hua, Stéphane, Vigano, Selena, Tse, Samantha, Zhengyu, Ouyang, Harrington, Sean, Negron, Jordi, Garcia-Broncano, Pilar, Marchetti, Giulia, Genebat, Miguel, Leal, Manuel, Resino, Salvador, Ruiz-Mateos, Ezequiel, Lichterfeld, Mathias, Yu, Xu G

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Potent Cell-Intrinsic Immune Responses in Dendritic Cells Facilitate HIV-1-Specific T Cell Immunity in HIV-1 Elite Controllers von Martin-Gayo, Enrique, Buzon, Maria Jose, Ouyang, Zhengyu, Hickman, Taylor, Cronin, Jacqueline, Pimenova, Dina, Walker, Bruce D, Lichterfeld, Mathias, Yu, Xu G

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Cooperation between cGAS and RIG-I sensing pathways enables improved innate recognition of HIV-1 by myeloid dendritic cells in elite controllers von Martin-Gayo, Enrique, Gao, Ce, Calvet-Mirabent, Marta, Ouyang, Zhengyu, Lichterfeld, Mathias, Yu, Xu G

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

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Immunological Fingerprints of Controllers Developing Neutralizing HIV-1 Antibodies von 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.

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

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

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Recommendations of scRNA-seq Differential Gene Expression Analysis Based on Comprehensive Benchmarking von Gagnon, Jake, Pi, Lira, Ryals, Matthew, Wan, Qingwen, Hu, Wenxing, Ouyang, Zhengyu, Zhang, Baohong, Li, Kejie

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

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Cx3cr1- deficient microglia exhibit a premature aging transcriptome von 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

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Research on Influencing Factors of National Tourism Development Based on Computer Technology von Ouyang, Zhengyu

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Conserved and differential gene interactions in dynamical biological systems von Ouyang, Zhengyu, Song, Mingzhou, Güth, Robert, Ha, Thomas J., Larouche, Matt, Goldowitz, Dan

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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... von 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

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