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Epstein-Barr Virus Orchestrates Spatial Reorganization and Immunomodulation within the Classic Hodgkin Lymphoma Tumor Microenvironment
Yao et al.,
bioRxiv,
2024
Biology
Cancer
Alex K. Shalek
Bokai Zhu
Glycan-costumed virus-like particles promote type 1 anti-tumor immunity
Lensch et al.,
biorxiv,
2024
Biology
Cancer
Genomics
Immunology
Alex K. Shalek
Ankit Basak
Engineering kinetics of TLR7/8 agonist release from bottlebrush prodrugs enables tumor-focused immune stimulation
Bhagchandani et al.,
Science Advances,
2023
Biology
Cancer
Chemistry
Genomics
Immunology
Medicine
R&D
Technology
Alex K. Shalek
Evelyn Yuzhou Tong
Michelle Ramseier
PI3Kβ controls immune evasion in PTEN-deficient breast tumours
Bergholz et al.,
Nature,
2023
Biology
Cancer
Genomics
Immunology
Medicine
Alex K. Shalek
Jay Prakadan
Michelle Ramseier
A human liver cell-based system modeling a clinical prognostic liver signature for therapeutic discovery
Crouchet et al.,
Nature Communications,
2023
Biology
Cancer
Genomics
Immunology
R&D
Technology
Alex K. Shalek
Compressed phenotypic screens for complex multicellular models and high-content assays
Mead et al.,
bioRxiv,
2023
Biology
Cancer
Chemistry
Computational Methods
Genomics
R&D
Statistics
Technology
Alex K. Shalek
Ben Mead
Conner Kummerlowe
Ivy Liu
Peter Winter
Thomas Nok Hin Cheng
Walaa Kattan
Spatially Resolved Single-Cell Assessment of Pancreatic Cancer Expression Subtypes Reveals Co-expressor Phenotypes and Extensive Intratumoral Heterogeneity
Williams et al.,
Cancer Research,
2023
Cancer
Genomics
Immunology
R&D
Technology
Alex K. Shalek
Andrew Navia
Peter Winter
Hypoxic, glycolytic metabolism is a vulnerability of B-acute lymphoblastic leukemia-initiating cells
Morris et al.,
Cell Reports,
2023
Biology
Cancer
Genomics
Immunology
Alex K. Shalek
Travis Hughes
Single-Cell Multiomics Reveals Clonal T-Cell Expansions and Exhaustion in Blastic Plasmacytoid Dendritic Cell Neoplasm
DePasquale et al.,
Frontiers in Immunology,
2023
Biology
Cancer
Cell Atlas
Genomics
Immunology
Alex K. Shalek
Charles P. Couturier
PI3K activation allows immune evasion by promoting an inhibitory myeloid tumor microenvironment
Collins et al.,
Journal for Immunotherapy of Cancer,
2023
Biology
Cancer
Genomics
Immunology
Medicine
Alex K. Shalek
Marc Wadsworth II
Travis Hughes
Deciphering the immunopeptidome in vivo reveals new tumour antigens
Jaeger et al.,
Nature,
2022
Biology
Cancer
Genomics
Immunology
Alex K. Shalek
Peter Winter
Single-cell analysis of human primary prostate cancer reveals the heterogeneity of tumor-associated epithelial cell states
Song et al.,
Nature Communications,
2022
Biology
Cancer
Genomics
Immunology
R&D
Alex K. Shalek
Marc Wadsworth II
Microenvironment drives cell state, plasticity, and drug response in pancreatic cancer
Raghavan et al.,
Cell,
2021
Cancer
Computational Methods
Genomics
Immunology
Medicine
R&D
Technology
Alex K. Shalek
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Peter Winter
Measuring kinetics and metastatic propensity of CTCs by blood exchange between mice
Hamza et al.,
Nature Communications,
2021
Biology
Cancer
Genomics
Immunology
Physics
R&D
Technology
Alex K. Shalek
Nolawit Mulugeta
Genomic and transcriptomic correlates of immunotherapy response within the tumor microenvironment of leptomeningeal metastases
Prakadan et al.,
Nature Communications,
2021
Biology
Cancer
Genomics
Immunology
Medicine
Alex K. Shalek
Andrew Navia
Jay Prakadan
Kellie Kolb
Marc Wadsworth II
Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas
Amoozgar et al.,
Nature Communications,
2021
Cancer
Genomics
Immunology
Medicine
Alex K. Shalek
Sam Kazer
Inflammasomes within hyperactive murine dendritic cells stimulate long-lived T cell-mediated anti-tumor immunity
Zhivaki et al.,
Cell Reports,
2020
Biology
Cancer
Genomics
Immunology
Medicine
Alex K. Shalek
Benjamin Doran
Ira Fleming
The tumor microenvironment drives transcriptional phenotypes and their plasticity in metastatic pancreatic cancer
Raghavan et al.,
bioRxiv,
2020
Biology
Cancer
Cell Atlas
Computational Methods
Genomics
Immunology
Medicine
Technology
Alex K. Shalek
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Peter Winter
The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution
Rozenblatt-Rosen et al.,
Cell,
2020
Biology
Cancer
Cell Atlas
Computational Methods
Genomics
Immunology
Medicine
Alex K. Shalek
Spatially-resolved live cell tagging and isolation using protected photoactivatable cell dyes
Genshaft et al.,
bioRxiv,
2020
Biology
Cancer
Chemistry
Genomics
R&D
Technology
Alex Genshaft
Alex K. Shalek
Andrew Navia
Ben Mead
Carly Ziegler
Constantine Tzouanas
Mechanisms of lymphoma clearance induced by high-dose alkylating agents
Lossos et al.,
Cancer Discovery,
2019
Biology
Cancer
Immunology
Alex K. Shalek
Jay Prakadan
Kellie Kolb
Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity
van Galen et al.,
Cell,
2019
Alex K. Shalek
Marc Wadsworth II
Travis Hughes
Optofluidic real-time cell sorter for longitudinal CTC studies in mouse models of cancer
Hamza B. et al.,
PNAS,
2019
Biology
Cancer
Computational Methods
R&D
Technology
Alejandro Gupta
Alex K. Shalek
Andrew Navia
Jay Prakadan
Peter Winter
Riley Drake
Linking single-cell measurements of mass, growth rate, and gene expression
Kimmerling R.J. et al.,
Genome Biology,
2018
Biology
Cancer
Genomics
Physics
R&D
Technology
Alejandro Gupta
Alex K. Shalek
Jay Prakadan
Riley Drake
A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade
Jerby-Arnon et al.,
Cell,
2018
Alex K. Shalek
Single-cell analyses to tailor treatments
Shalek A.K. et al.,
Science Translational Medicine,
2017
Immunology
Infectious Disease
Medicine
Technology
Alex K. Shalek
IFNγ-Dependent Tissue-Immune Homeostasis is Co-opted in the Tumor Microenvironment
Nirschl et al.,
Cell,
2017
Cancer
Genomics
Immunology
Alex K. Shalek
Jay Prakadan
Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq
Tirosh et al.,
Science,
2016
Biology
Cancer
Genomics
Medicine
Aleth Gaillard
Alex Genshaft
Alex K. Shalek
Carly Ziegler
Jay Prakadan
Kellie Kolb
Marc Wadsworth II
Sam Kazer
Travis Hughes
Somatic mutation as a mechanism of Wnt/β-catenin pathway activation in CLL
Wang et al.,
Blood,
2014
Cancer
Genomics
Alex K. Shalek
Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma
Patel et al.,
Science,
2014
Cancer
Genomics
Alex K. Shalek
Reconstructing and Reprogramming the Tumor-Propagating Potential of Glioblastoma Stem-like Cells
Suvà et al.,
Cell,
2014
Biology
Cancer
Genomics
Alex K. Shalek
Whole-exome sequencing of circulating tumor cells provides a window into metastatic prostate cancer
Lohr et al.,
Nature Biotechnology,
2014
Biology
Cancer
Genomics
Alex K. Shalek
Nanowire-Mediated Delivery Enables Functional Interrogation of Primary Immune Cells: Application to the Analysis of Chronic Lymphocytic Leukemia
Shalek et al.,
Nano Letters,
2012
Cancer
Genomics
R&D
Technology
Alex K. Shalek
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