Search Results - "SINGER, MEROMIT"

Identification and correction of systematic error in high-throughput sequence data by Meacham, Frazer, Boffelli, Dario, Dhahbi, Joseph, Martin, David I K, Singer, Meromit, Pachter, Lior

“…A feature common to all DNA sequencing technologies is the presence of base-call errors in the sequenced reads. The implications of such errors are application…”
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Combinatorial prediction of marker panels from single‐cell transcriptomic data by Delaney, Conor, Schnell, Alexandra, Cammarata, Louis V, Yao‐Smith, Aaron, Regev, Aviv, Kuchroo, Vijay K, Singer, Meromit

“…Single‐cell transcriptomic studies are identifying novel cell populations with exciting functional roles in various in vivo contexts, but identification of…”
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Purine synthesis promotes maintenance of brain tumor initiating cells in glioma by Wang, Xiuxing, Yang, Kailin, Xie, Qi, Wu, Qiulian, Mack, Stephen C, Shi, Yu, Kim, Leo J Y, Prager, Briana C, Flavahan, William A, Liu, Xiaojing, Singer, Meromit, Hubert, Christopher G, Miller, Tyler E, Zhou, Wenchao, Huang, Zhi, Fang, Xiaoguang, Regev, Aviv, Suvà, Mario L, Hwang, Tae Hyun, Locasale, Jason W, Bao, Shideng, Rich, Jeremy N

“…Brain tumor initiating cells (BTICs) utilize high-affinity glucose uptake, which is normally active in neurons to maintain energy demands and self-renew…”
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Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias by Raundhal, Mahesh, Ghosh, Shrestha, Myers, Samuel A., Cuoco, Michael S., Singer, Meromit, Carr, Steven A., Waikar, Sushrut S., Bonventre, Joseph V., Ritz, Jerome, Stone, Richard M., Steensma, David P., Regev, Aviv, Glimcher, Laurie H.

“…Patients with myelodysplastic syndromes (MDSs) display severe anemia but the mechanisms underlying this phenotype are incompletely understood. Right…”
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Revolutionizing Cancer Immunology: The Power of Next-Generation Sequencing Technologies by Singer, Meromit, Anderson, Ana C

“…It has long been appreciated that tumors are diverse, varying in mutational status, composition of cellular infiltrate, and organizational architecture. For…”
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Author Correction: Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias by Raundhal, Mahesh, Ghosh, Shrestha, Myers, Samuel A., Cuoco, Michael S., Singer, Meromit, Carr, Steven A., Waikar, Sushrut S., Bonventre, Joseph V., Ritz, Jerome, Stone, Richard M., Steensma, David P., Regev, Aviv, Glimcher, Laurie H.

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Effect of IL-7 Therapy on Phospho-Ribosomal Protein S6 and TRAF1 Expression in HIV-Specific CD8 T Cells in Patients Receiving Antiretroviral Therapy by Wang, Chao, Edilova, Maria I, Wagar, Lisa E, Mujib, Shariq, Singer, Meromit, Bernard, Nicole F, Croughs, Thérèse, Lederman, Michael M, Sereti, Irini, Fischl, Margaret A, Kremmer, Elisabeth, Ostrowski, Mario, Routy, Jean-Pierre, Watts, Tania H

“…IL-7 therapy has been evaluated in patients who do not regain normal CD4 T cell counts after virologically successful antiretroviral therapy. IL-7 increases…”
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MetMap enables genome-scale Methyltyping for determining methylation states in populations by Singer, Meromit, Boffelli, Dario, Dhahbi, Joseph, Schönhuth, Alexander, Schroth, Gary P, Martin, David I K, Pachter, Lior

“…The ability to assay genome-scale methylation patterns using high-throughput sequencing makes it possible to carry out association studies to determine the…”
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Molecular Dissection of CD8+ T-Cell Dysfunction by Wang, Chao, Singer, Meromit, Anderson, Ana C.

“…Chronic viral infections and cancer often lead to the emergence of dysfunctional or ‘exhausted’ CD8+ T cells, and the restoration of their functions is…”
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Controlling for conservation in genome-wide DNA methylation studies by Singer, Meromit, Pachter, Lior

“…A commonplace analysis in high-throughput DNA methylation studies is the comparison of methylation extent between different functional regions, computed by…”
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A diverse epigenetic landscape at human exons with implication for expression by Singer, Meromit, Kosti, Idit, Pachter, Lior, Mandel-Gutfreund, Yael

“…DNA methylation is an important epigenetic marker associated with gene expression regulation in eukaryotes. While promoter methylation is relatively well…”
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Induction and transcriptional regulation of the co-inhibitory gene module in T cells by Chihara, Norio, Madi, Asaf, Kondo, Takaaki, Zhang, Huiyuan, Acharya, Nandini, Singer, Meromit, Nyman, Jackson, Marjanovic, Nemanja D., Kowalczyk, Monika S., Wang, Chao, Kurtulus, Sema, Law, Travis, Etminan, Yasaman, Nevin, James, Buckley, Christopher D., Burkett, Patrick R., Buenrostro, Jason D., Rozenblatt-Rosen, Orit, Anderson, Ana C., Regev, Aviv, Kuchroo, Vijay K.

“…The expression of co-inhibitory receptors, such as CTLA-4 and PD-1, on effector T cells is a key mechanism for ensuring immune homeostasis. Dysregulated…”
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Stem-like intestinal Th17 cells give rise to pathogenic effector T cells during autoimmunity by Schnell, Alexandra, Huang, Linglin, Singer, Meromit, Singaraju, Anvita, Barilla, Rocky M., Regan, Brianna M.L., Bollhagen, Alina, Thakore, Pratiksha I., Dionne, Danielle, Delorey, Toni M., Pawlak, Mathias, Meyer zu Horste, Gerd, Rozenblatt-Rosen, Orit, Irizarry, Rafael A., Regev, Aviv, Kuchroo, Vijay K.

“…While intestinal Th17 cells are critical for maintaining tissue homeostasis, recent studies have implicated their roles in the development of extra-intestinal…”
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Endogenous Glucocorticoid Signaling Regulates CD8+ T Cell Differentiation and Development of Dysfunction in the Tumor Microenvironment by Acharya, Nandini, Madi, Asaf, Zhang, Huiyuan, Klapholz, Max, Escobar, Giulia, Dulberg, Shai, Christian, Elena, Ferreira, Michelle, Dixon, Karen O., Fell, Geoffrey, Tooley, Katherine, Mangani, Davide, Xia, Junrong, Singer, Meromit, Bosenberg, Marcus, Neuberg, Donna, Rozenblatt-Rosen, Orit, Regev, Aviv, Kuchroo, Vijay K., Anderson, Ana C.

“…Identifying signals in the tumor microenvironment (TME) that shape CD8+ T cell phenotype can inform novel therapeutic approaches for cancer. Here, we…”
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A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells by Singer, Meromit, Wang, Chao, Cong, Le, Marjanovic, Nemanja D., Kowalczyk, Monika S., Zhang, Huiyuan, Nyman, Jackson, Sakuishi, Kaori, Kurtulus, Sema, Gennert, David, Xia, Junrong, Kwon, John Y.H., Nevin, James, Herbst, Rebecca H., Yanai, Itai, Rozenblatt-Rosen, Orit, Kuchroo, Vijay K., Regev, Aviv, Anderson, Ana C.

“…Reversing the dysfunctional T cell state that arises in cancer and chronic viral infections is the focus of therapeutic interventions; however, current…”
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Single-cell analyses identify circulating anti-tumor CD8 T cells and markers for their enrichment by Pauken, Kristen E, Shahid, Osmaan, Lagattuta, Kaitlyn A, Mahuron, Kelly M, Luber, Jacob M, Lowe, Margaret M, Huang, Linglin, Delaney, Conor, Long, Jaclyn M, Fung, Megan E, Newcomer, Kathleen, Tsai, Katy K, Chow, Melissa, Guinn, Samantha, Kuchroo, Juhi R, Burke, Kelly P, Schenkel, Jason M, Rosenblum, Michael D, Daud, Adil I, Sharpe, Arlene H, Singer, Meromit

“…The ability to monitor anti-tumor CD8+ T cell responses in the blood has tremendous therapeutic potential. Here, we used paired single-cell RNA and TCR…”
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Circulating clonally expanded T cells reflect functions of tumor-infiltrating T cells by Lucca, Liliana E, Axisa, Pierre-Paul, Lu, Benjamin, Harnett, Brian, Jessel, Shlomit, Zhang, Le, Raddassi, Khadir, Zhang, Lin, Olino, Kelly, Clune, James, Singer, Meromit, Kluger, Harriet M, Hafler, David A

“…Understanding the relationship between tumor and peripheral immune environments could allow longitudinal immune monitoring in cancer. Here, we examined whether…”
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A bilateral tumor model identifies transcriptional programs associated with patient response to immune checkpoint blockade by Chen, Ivy X., Newcomer, Kathleen, Pauken, Kristen E., Juneja, Vikram R., Naxerova, Kamila, Wu, Michelle W., Pinter, Matthias, Sen, Debattama R., Singer, Meromit, Sharpe, Arlene H., Jain, Rakesh K.

“…Immune checkpoint blockade (ICB) is efficacious in many diverse cancer types, but not all patients respond. It is important to understand the mechanisms…”
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Single-cell clonotype tracing of tissue Th17 cells during CNS autoimmunity reveals the conversion of intestinal homeostatic cells to pathogenic cells by Schnell, Alexandra, Huang, Linglin, Singer, Meromit, Singaraju, Anvita, Bollhagen, Alina, Thakore, Pratiksha I, Dionne, Danielle, Delorey, Toni M, Pawlak, Mathias, Irizarry, Rafael, Regev, Aviv, Kuchroo, Vijay K

“…Abstract At homeostasis, most Th17 cells are found in the lamina propria of the intestine, where they contribute to tissue homeostasis by inhibiting microbiota…”
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Nitrogen source interacts with ROP signalling in root hair tip-growth by BLOCH, DARIA, MONSHAUSEN, GABRIELE, SINGER, MEROMIT, GILROY, SIMON, YALOVSKY, SHAUL

“…Root hairs elongate in a highly polarized manner known as tip growth. Overexpression of constitutively active Rho of Plant (ROP)/RAC GTPases mutants induces…”
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