Microenvironment drives cell state, plasticity, and drug response in pancreatic cancer
Cancer
Computational Methods
Genomics
Immunology
Medicine
R&D
Technology
Peter Winter
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Alex K. Shalek
Clinical implementation of single-cell RNA sequencing using liver fine needle aspirate tissue sampling and centralized processing captures compartment specific immuno-diversity
Biology
Cell AtlasComputational MethodsGenomicsImmunology
Infectious DiseaseR&DTechnology
Alex Genshaft
Mike Vilme
Riley Drake
Ira Fleming
Nancy Tran
Constantine Tzouanas
Jasmin Joseph-ChazanAlex K. Shalek
Aggregated Mycobacterium tuberculosis Enhances the Inflammatory Response
BiologyGenomicsImmunologyInfectious Disease
Microbiology
Carly ZieglerAlex K. Shalek
Allelic variation in class I HLA determines CD8+ T cell repertoire shape and cross-reactive memory responses to SARS-CoV-2
BiologyGenomicsImmunologyInfectious DiseaseAlex K. Shalek
Cellular and transcriptional diversity over the course of human lactation
BiologyCell AtlasGenomicsImmunology
Vincent Miao
Patricia GaoRiley Drake
Kellie Kolb
Ben MeadAlex K. Shalek
Brittany Goods
Enteric Coronavirus Infection and Treatment Modeled With an Immunocompetent Human Intestine-On-A-Chip
BiologyGenomicsImmunologyInfectious DiseaseMedicineR&DTechnologyVincent MiaoAndrew NaviaCarly Ziegler
José Ordovas-MontañesAlex K. Shalek
Measuring kinetics and metastatic propensity of CTCs by blood exchange between mice
BiologyCancerGenomicsImmunology
PhysicsR&DTechnologyNolawit MulugetaAlex K. Shalek
Single cell biology—a Keystone Symposia report
BiologyCell AtlasGenomicsAlex K. Shalek
Genomic and transcriptomic correlates of immunotherapy response within the tumor microenvironment of leptomeningeal metastases
BiologyCancerGenomicsImmunologyMedicine
Jay PrakadanAndrew NaviaKellie Kolb
Marc Wadsworth IIAlex K. Shalek
A Treatment-Naive Cellular Atlas of Pediatric Crohn’s Disease Predicts Disease Severity and Therapeutic Response
BiologyCell AtlasComputational MethodsGenomicsImmunologyMedicine
Benjamin Doran
Kyle KimlerAlex K. ShalekJosé Ordovas-Montañes
Identification of immune correlates of fatal outcomes in critically ill COVID-19 patients
BiologyGenomicsImmunologyInfectious DiseaseVincent MiaoAlex K. Shalek
HIV infection drives interferon signaling within intestinal SARS-CoV-2 target cells
GenomicsImmunologyInfectious Disease
Sarah NyquistAlex K. Shalek
Live cell tagging tracking and isolation for spatial transcriptomics using photoactivatable cell dyes
GenomicsR&DTechnologyAlex GenshaftCarly ZieglerConstantine TzouanasBen MeadAndrew NaviaAlex K. Shalek
Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19
BiologyCell AtlasComputational MethodsGenomicsImmunologyInfectious DiseaseCarly ZieglerVincent MiaoAndrew Navia
Josh Bromley
Micayla GeorgeRiley DrakeAlex K. ShalekJosé Ordovas-Montañes
Expression of Foxp3 by T follicular helper cells in end-stage germinal centers
BiologyGenomicsImmunology
Sam AllonAlex K. Shalek
The cellular architecture of the antimicrobial response network in human leprosy granulomas
BiologyGenomicsImmunologyInfectious DiseaseMicrobiology
Travis HughesMarc Wadsworth IIAlex K. Shalek
Single-cell immunophenotyping of the skin lesion erythema migrans identifies IgM memory B cells
BiologyGenomicsImmunologyInfectious DiseaseIra FlemingAlex K. Shalek
High-fat diet-activated fatty acid oxidation mediates intestinal stemness and tumorigenicity
BiologyGenomicsConstantine TzouanasAlex K. Shalek
Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas
CancerGenomicsImmunologyMedicine
Sam KazerAlex K. Shalek
COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets
BiologyCell AtlasComputational MethodsGenomicsImmunologyInfectious Disease
StatisticsCarly ZieglerAlex K. Shalek
Single-cell profiling of environmental enteropathy reveals signatures of epithelial remodeling and immune activation in severe disease
BiologyGenomicsImmunologyInfectious Disease
Conner KummerloweTravis HughesNolawit MulugetaIra Fleming
Marko VukovicBenjamin DoranJosé Ordovas-MontañesAlex K. Shalek
MR1-Restricted MAIT Cells From The Human Lung Mucosal Surface Have Distinct Phenotypic, Functional, and Transcriptomic Features That Are Preserved in HIV Infection
BiologyGenomicsImmunologyInfectious DiseaseMicrobiologyJay PrakadanSam KazerAlex K. Shalek
Human airway mast cells proliferate and acquire distinct inflammation-driven phenotypes during type 2 inflammation
BiologyGenomicsImmunologyJosé Ordovas-MontañesSam AllonMarko VukovicTravis HughesSarah NyquistAlex K. Shalek
Leukocyte dynamics after intracerebral hemorrhage in a living patient reveal rapid adaptations to tissue milieu
BiologyGenomicsImmunologyMedicineBrittany GoodsRiley DrakeIra FlemingAlex K. Shalek
How are methodological developments enabling insights into cell behavior in cellular communities?
BiologyGenomicsImmunologyAlex K. Shalek
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics
Cell AtlasComputational MethodsGenomicsImmunologyInfectious DiseaseStatisticsSam AllonSarah NyquistMarc Wadsworth IICarly ZieglerAlex K. Shalek
A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2
BiologyCell AtlasComputational MethodsGenomicsImmunologyInfectious DiseaseStatisticsCarly ZieglerAlex K. Shalek
Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19
BiologyGenomicsImmunologyInfectious DiseaseMicrobiologyCarly ZieglerVincent MiaoAndrew NaviaJosh BromleyMicayla GeorgeRiley DrakeAlex K. ShalekJosé Ordovas-Montañes
Longitudinal transcriptomics define the stages of myeloid activation in the living human brain after intracerebral hemorrhage
BiologyGenomicsImmunologyMedicineBrittany Goods
Shaina CarrollRiley Drake
James GatterAlex K. Shalek
Spatiotemporal single-cell profiling reveals that invasive and tissue-resident memory donor CD8+ T cells drive gastrointestinal acute graft-versus-host disease
BiologyCell AtlasGenomicsImmunologyMedicine
Jim KaminskiJosé Ordovas-MontañesAlex K. Shalek