Glycan-costumed virus-like particles promote type 1 anti-tumor immunity
  • Lensch et al.,
  • biorxiv,
  • 2024
Biology
Cancer
Genomics
Immunology
Ankit Basak
Alex K. Shalek
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
Evelyn Yuzhou Tong
Michelle Ramseier
Alex K. Shalek
PI3Kβ controls immune evasion in PTEN-deficient breast tumours
  • Bergholz et al.,
  • Nature,
Biology
Cancer
Genomics
Immunology
Medicine
Michelle Ramseier
Jay Prakadan
Alex K. Shalek
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
Ben Mead
Conner Kummerlowe
Ivy Liu
Walaa Kattan
Thomas Nok Hin Cheng
Peter Winter
Alex K. Shalek
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
Peter Winter
Andrew Navia
Alex K. Shalek
Hypoxic, glycolytic metabolism is a vulnerability of B-acute lymphoblastic leukemia-initiating cells
  • Morris et al.,
  • Cell Reports,
  • 2023
Biology
Cancer
Genomics
Immunology
Travis Hughes
Alex K. Shalek
Single-Cell Multiomics Reveals Clonal T-Cell Expansions and Exhaustion in Blastic Plasmacytoid Dendritic Cell Neoplasm
  • DePasquale et al.,
  • Frontiers in Immunology,
Biology
Cancer
Cell Atlas
Genomics
Immunology
Charles P. Couturier
Alex K. Shalek
PI3K activation allows immune evasion by promoting an inhibitory myeloid tumor microenvironment
  • Collins et al.,
  • Journal for Immunotherapy of Cancer,
Biology
Cancer
Genomics
Immunology
Medicine
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
Deciphering the immunopeptidome in vivo reveals new tumour antigens
  • Jaeger et al.,
  • Nature,
  • 2022
Biology
Cancer
Genomics
Immunology
Peter Winter
Alex K. Shalek
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
Marc Wadsworth II
Alex K. Shalek
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
Peter Winter
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Alex K. Shalek
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
Nolawit Mulugeta
Alex K. Shalek
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
Jay Prakadan
Andrew Navia
Kellie Kolb
Marc Wadsworth II
Alex K. Shalek
Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas
  • Amoozgar et al.,
  • Nature Communications,
  • 2021
Cancer
Genomics
Immunology
Medicine
Sam Kazer
Alex K. Shalek
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
Benjamin Doran
Ira Fleming
Alex K. Shalek
Single-cell analysis of human primary prostate cancer reveals the heterogeneity of tumor-associated epithelial cell states
  • Song et al.,
  • bioRxiv,
  • 2020
Biology
Cancer
Genomics
Immunology
Marc Wadsworth II
Alex K. Shalek
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
Peter Winter
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Alex K. Shalek
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
Carly Ziegler
Constantine Tzouanas
Ben Mead
Andrew Navia
Alex K. Shalek
Mechanisms of lymphoma clearance induced by high-dose alkylating agents
  • Lossos et al.,
  • Cancer Discovery,
  • 2019
Biology
Cancer
Immunology
Kellie Kolb
Jay Prakadan
Alex K. Shalek
Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity
  • van Galen et al.,
  • Cell,
  • 2019
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
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
Jay Prakadan
Andrew Navia
Peter Winter
Riley Drake
Alejandro Gupta
Alex K. Shalek
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
Jay Prakadan
Alejandro Gupta
Riley Drake
Alex K. Shalek
Linking single-cell measurements of mass, growth rate, and gene expression
  • Kimmerling et al.,
  • BioRxiv,
  • 2018
Chemistry
Genomics
Technology
Jay Prakadan
Alejandro Gupta
Riley Drake
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
Jay Prakadan
Alex K. Shalek
Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq
  • Tirosh et al.,
  • Science,
  • 2016
Biology
Cancer
Genomics
Medicine
Jay Prakadan
Marc Wadsworth II
Alex Genshaft
Travis Hughes
Carly Ziegler
Sam Kazer
Aleth Gaillard
Kellie Kolb
Alex K. Shalek
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
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