Single-cell RNA sequencing of liver fine-needle aspirates captures immune diversity in the blood and liver in chronic hepatitis B patients
  • Genshaft et al.,
  • Hepatology,
  • 2023
Biology
Cell Atlas
Genomics
Immunology
R&D
Technology
Alex Genshaft
Mike Vilme
Riley Drake
Ira Fleming
Nancy Tran
Constantine Tzouanas
Jasmin Joseph-Chazan
Alex K. Shalek
Comparative analysis of cell–cell communication at single-cell resolution
  • Wilk et al.,
  • Nature Biotechnology,
  • 2023
Computational Methods
Genomics
R&D
Statistics
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,
  • 2023
Biology
Cancer
Genomics
Immunology
Medicine
Michelle Ramseier
Jay Prakadan
Alex K. Shalek
Pro-inflammatory feedback loops define immune responses to pathogenic lentivirus infection
  • Wilk et al.,
  • bioRxiv,
  • 2023
Genomics
Immunology
Infectious Disease
Sam Kazer
Ira Fleming
Vincent Miao
Jennyfer Galvez-Reyes
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
Mepolizumab targets multiple immune cells in aspirin-exacerbated respiratory disease
  • Buchheit et al.,
  • Journal of Allergy and Clinical Immunology,
  • 2023
Biology
Genomics
Immunology
Medicine
Marko Vukovic
Alex K. Shalek
José Ordovas-Montañes
An ex vivo ovulation system enables the discovery of novel ovulatory pathways and nonhormonal contraceptive candidates
  • Zhang et al.,
  • Biology of Reproduction,
  • 2023
Biology
Cell Atlas
Genomics
Brittany Goods
Alex K. Shalek
Vitrification preserves murine ovarian follicular cell transcriptome in a 3D encapsulated in vitro follicle growth system
  • Wang et al.,
  • Biology of Reproduction,
  • 2023
Biology
Genomics
Immunology
R&D
Technology
Riley Drake
Daniela Russo
Alex K. Shalek
Brittany Goods
Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity
  • Bui et al.,
  • Nature Communications,
  • 2023
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Alex K. Shalek
Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19
  • Bernardes et al.,
  • Immunity,
  • 2023
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Alex K. Shalek
Myocyte-Specific Upregulation of ACE2 in Cardiovascular Disease: Implications for SARS-CoV-2–Mediated Myocarditis
  • Tucker et al.,
  • Circulation,
  • 2023
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Alex K. Shalek
IL-5Rα marks nasal polyp IgG4- and IgE-expressing cells in aspirin-exacerbated respiratory disease
  • Buchheit et al.,
  • Journal of Allergy and Clinical Immunology,
  • 2023
Biology
Genomics
Immunology
José Ordovas-Montañes
Marko Vukovic
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
NIAID Workshop on T Cell Technologies
  • Gondré-Lewis et al.,
  • Nature Immunology,
  • 2023
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
R&D
Alex K. Shalek
Identification and characterization of the T cell receptor (TCR) repertoire of the cynomolgus macaque (Macaca Fascicularis)
  • Jaiswal et al.,
  • BMC Genomics,
  • 2023
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
R&D
Sarah Nyquist
Tasneem Jivanjee
Samira Ibrahim
Josh Bromley
James Gatter
Alex K. Shalek
HIV specific CD8+ TRM-like cells in tonsils express exhaustive signatures in the absence of natural HIV control
  • Fardoos et al.,
  • Frontiers in Immunology,
  • 2023
Biology
Genomics
Immunology
Infectious Disease
Sarah Nyquist
Sam Kazer
Son Nguyen
Alex K. Shalek
Single-cell transcriptomics of staged oocytes and somatic cells reveal novel regulators of follicle activation
  • Chen et al.,
  • Reproduction,
  • 2023
Biology
Genomics
R&D
Technology
Daniela Russo
Riley Drake
Alex K. Shalek
Brittany Goods
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,
  • 2023
Biology
Cancer
Cell Atlas
Genomics
Immunology
Charles P. Couturier
Alex K. Shalek
Identification and tracking of alloreactive T cell clones in Rhesus Macaques through the RM-scTCR-Seq platform
  • Gerdemann et al.,
  • Frontiers in Immunology,
  • 2023
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
R&D
Technology
Jim Kaminski
Alex K. Shalek
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
Marc Wadsworth II
Travis Hughes
Alex K. Shalek