A bilateral tumor model identifies transcriptional programs associated with patient response to immune checkpoint blockade

Authors: 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.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2020 Sep . 117(38), 23684-23694.

Access URL: https://www.jstor.org/stable/26969339

Stem-like intestinal Th17 cells give rise to pathogenic effector T cells during autoimmunity

Authors: 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.

Source: In Cell 22 December 2021 184(26):6281-6298

A method for classifying colorectal cancer and gastric/esophageal cancer using blood-based testing.

Authors: Forouzmand, Elmira, Gittelman, Rachel, Selewa, Alan, Singer, Meromit, Hoang, Theresa, He, Yupeng, Chudova, Darya, Talasaz, AmirAli

Source: Journal of Clinical Oncology; 2025 Supplement 4, Vol. 43, p52-52, 307p

Endogenous Glucocorticoid Signaling Regulates CD8+ T Cell Differentiation and Development of Dysfunction in the Tumor Microenvironment

Authors: 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.

Source: In Immunity 15 September 2020 53(3):658-671

Molecular Dissection of CD8+ T-Cell Dysfunction

Authors: Wang, Chao, Singer, Meromit, Anderson, Ana C.

Source: In Trends in Immunology August 2017 38(8):567-576

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells

Authors: 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.

Source: In Cell 8 September 2016 166(6):1500-1511

Controlling for conservation in genome-wide DNA methylation studies.

Authors: Singer, Meromit^1,2, Pachter, Lior^1,3,4 lpachter@math.berkeley.edu

Source: BMC Genomics. 2015, Vol. 16 Issue 1, p1-13. 13p. 3 Diagrams, 1 Chart, 2 Graphs.

Subject Terms: *DNA methylation, *INTRONS, *EXONS (Genetics), *EPIGENETICS, *ALGORITHM research

Identification and correction of systematic error in high-throughput sequence data

Authors: Meacham Frazer, Boffelli Dario, Dhahbi Joseph, Martin David IK, Singer Meromit, Pachter Lior

Source: BMC Bioinformatics, Vol 12, Iss 1, p 451 (2011)

Subject Terms: Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.biomedcentral.com/1471-2105/12/451; https://doaj.org/toc/1471-2105

Access URL: https://doaj.org/article/dca10fdb313a401d9aa9f0b4047c97d7

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells

Authors: 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.

Source: In Cell 16 November 2017 171(5):1221-1223

MetMap Enables Genome-Scale Methyltyping for Determining Methylation States in Populations.

Authors: Singer, Meromit¹, Boffelli, Dario², Dhahbi, Joseph², Schönhuth, Alexander^3,4, Schroth, Gary P.⁵, Martin, David I. K.², Pachter, Lior^3,4 lpachter@math.berkeley.edu

Source: PLoS Computational Biology. Aug2010, Vol. 6 Issue 8, p1-12. 12p. 1 Diagram, 4 Charts, 4 Graphs.

Subject Terms: *METHYLATION, *GENOTYPE-environment interaction, *SEQUENCE alignment, *COMPARATIVE studies, *BAYESIAN analysis, *NEUTROPHILS

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Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias

Authors: 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.

Source: Nature Immunology; 20210101, Issue: Preprints p1-10, 10p

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Combinatorial prediction of marker panels from single‐cell transcriptomic data.

Authors: Delaney, Conor, Schnell, Alexandra, Cammarata, Louis V, Yao‐Smith, Aaron, Regev, Aviv, Kuchroo, Vijay K, Singer, Meromit

Source: Molecular Systems Biology; Oct2019, Vol. 15 Issue 10, p1-18, 18p

Subject Terms: CELL populations, INTEGRATED software, FLOW cytometry, LATENT class analysis (Statistics), COMPUTATIONAL biology

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