Deciphering the immunopeptidome in vivo reveals new tumour antigens
  • Jaeger et al.,
  • Nature,
  • 2022
Biology
Cancer
Genomics
Immunology
Peter Winter
Alex K. Shalek
How to ensure the Human Cell Atlas benefits humanity
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  • Nature,
  • 2022
Cell Atlas
Alex K. Shalek
Multimodal profiling of lung granulomas in macaques reveals cellular correlates of tuberculosis control
  • Gideon et al.,
  • Immunity,
  • 2022
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Microbiology
Travis Hughes
Constantine Tzouanas
Marc Wadsworth II
Conner Kummerlowe
Sarah Nyquist
Samira Ibrahim
José Ordovas-Montañes
Alex K. Shalek
A single-cell liver atlas of Plasmodium vivax infection
  • Mancio-Silva et al.,
  • Cell Host & Microbe,
  • 2022
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Microbiology
Technology
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
Cellular and transcriptional diversity over the course of human lactation
  • Nyquist et al.,
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  • 2022
Biology
Cell Atlas
Genomics
Immunology
Medicine
Sarah Nyquist
Patricia Gao
Riley Drake
Kellie Kolb
Ben Mead
Alex K. Shalek
Brittany Goods
Screening for modulators of the cellular composition of gut epithelia via organoid models of intestinal stem cell differentiation
  • Mead et al.,
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  • 2022
Biology
Computational Methods
Genomics
Immunology
Medicine
R&D
Technology
Ben Mead
Marko Vukovic
Conner Kummerlowe
José Ordovas-Montañes
Alex K. Shalek
JAK inhibition in a patient with a STAT1 gain-of-function variant reveals STAT1 dysregulation as a common feature of aplastic anemia
  • Rosenberg et al.,
  • Med,
  • 2022
Biology
Genomics
Immunology
Medicine
Travis Hughes
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
Clinical implementation of single-cell RNA sequencing using liver fine needle aspirate tissue sampling and centralized processing captures compartment specific immuno-diversity
  • Genshaft et al.,
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  • 2021
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
R&D
Technology
Alex Genshaft
Mike Vilme
Riley Drake
Ira Fleming
Nancy Tran
Constantine Tzouanas
Jasmin Joseph-Chazan
Alex K. Shalek
Aggregated Mycobacterium tuberculosis Enhances the Inflammatory Response
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  • 2021
Biology
Genomics
Immunology
Infectious Disease
Microbiology
Carly Ziegler
Alex K. Shalek
Allelic variation in class I HLA determines CD8+ T cell repertoire shape and cross-reactive memory responses to SARS-CoV-2
  • Francis et al.,
  • Science Immunology,
  • 2021
Biology
Genomics
Immunology
Infectious Disease
Alex K. Shalek
Cellular and transcriptional diversity over the course of human lactation
  • Nyquist et al.,
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  • 2021
Biology
Cell Atlas
Genomics
Immunology
Vincent Miao
Patricia Gao
Riley Drake
Kellie Kolb
Ben Mead
Alex K. Shalek
Brittany Goods
Enteric Coronavirus Infection and Treatment Modeled With an Immunocompetent Human Intestine-On-A-Chip
  • Bein et al.,
  • Frontiers in Pharmacology,
  • 2021
Biology
Genomics
Immunology
Infectious Disease
Medicine
R&D
Technology
Vincent Miao
Andrew Navia
Carly Ziegler
José Ordovas-Montañes
Alex K. Shalek
Measuring kinetics and metastatic propensity of CTCs by blood exchange between mice
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  • 2021
Biology
Cancer
Genomics
Immunology
Physics
R&D
Technology
Nolawit Mulugeta
Alex K. Shalek
Single cell biology—a Keystone Symposia report
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  • 2021
Biology
Cell Atlas
Genomics
Alex K. Shalek
Genomic and transcriptomic correlates of immunotherapy response within the tumor microenvironment of leptomeningeal metastases
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  • 2021
Biology
Cancer
Genomics
Immunology
Medicine
Jay Prakadan
Andrew Navia
Kellie Kolb
Marc Wadsworth II
Alex K. Shalek
A Treatment-Naive Cellular Atlas of Pediatric Crohn’s Disease Predicts Disease Severity and Therapeutic Response
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  • 2021
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Medicine
Benjamin Doran
Kyle Kimler
Alex K. Shalek
José Ordovas-Montañes
Identification of immune correlates of fatal outcomes in critically ill COVID-19 patients
  • Youngs et al.,
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  • 2021
Biology
Genomics
Immunology
Infectious Disease
Vincent Miao
Alex K. Shalek
HIV infection drives interferon signaling within intestinal SARS-CoV-2 target cells
  • Fardoos et al.,
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  • 2021
Genomics
Immunology
Infectious Disease
Sarah Nyquist
Alex K. Shalek
Live cell tagging tracking and isolation for spatial transcriptomics using photoactivatable cell dyes
  • Genshaft et al.,
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  • 2021
Genomics
R&D
Technology
Alex Genshaft
Carly Ziegler
Constantine Tzouanas
Ben Mead
Andrew Navia
Alex K. Shalek
Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19
  • Ziegler et al.,
  • Cell,
  • 2021
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Carly Ziegler
Vincent Miao
Andrew Navia
Josh Bromley
Micayla George
Riley Drake
Alex K. Shalek
José Ordovas-Montañes
Expression of Foxp3 by T follicular helper cells in end-stage germinal centers
  • Jacobsen et al.,
  • Science,
  • 2021
Biology
Genomics
Immunology
Sam Allon
Alex K. Shalek
The cellular architecture of the antimicrobial response network in human leprosy granulomas
  • Ma et al.,
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  • 2021
Biology
Genomics
Immunology
Infectious Disease
Microbiology
Travis Hughes
Marc Wadsworth II
Alex K. Shalek
Single-cell immunophenotyping of the skin lesion erythema migrans identifies IgM memory B cells
  • Jiang et al.,
  • JCI Insight,
  • 2021
Biology
Genomics
Immunology
Infectious Disease
Ira Fleming
Alex K. Shalek
High-fat diet-activated fatty acid oxidation mediates intestinal stemness and tumorigenicity
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  • 2021
Biology
Genomics
Constantine Tzouanas
Alex K. Shalek
Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas
  • Amoozgar et al.,
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  • 2021
Cancer
Genomics
Immunology
Medicine
Sam Kazer
Alex K. Shalek
COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets
  • Delorey et al.,
  • Nature,
  • 2021
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Statistics
Carly Ziegler
Alex K. Shalek
Single-cell profiling of environmental enteropathy reveals signatures of epithelial remodeling and immune activation in severe disease
  • Kummerlowe et al.,
  • bioRxiv,
  • 2021
Biology
Genomics
Immunology
Infectious Disease
Conner Kummerlowe
Travis Hughes
Nolawit Mulugeta
Ira Fleming
Marko Vukovic
Benjamin Doran
José Ordovas-Montañes
Alex 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
  • Khuzwayo et al.,
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  • 2021
Biology
Genomics
Immunology
Infectious Disease
Microbiology
Jay Prakadan
Sam Kazer
Alex K. Shalek
Human airway mast cells proliferate and acquire distinct inflammation-driven phenotypes during type 2 inflammation
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  • 2021
Biology
Genomics
Immunology
José Ordovas-Montañes
Sam Allon
Marko Vukovic
Travis Hughes
Sarah Nyquist
Alex K. Shalek
Leukocyte dynamics after intracerebral hemorrhage in a living patient reveal rapid adaptations to tissue milieu
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  • 2021
Biology
Genomics
Immunology
Medicine
Brittany Goods
Riley Drake
Ira Fleming
Alex K. Shalek
How are methodological developments enabling insights into cell behavior in cellular communities?
  • Piddini et al.,
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  • 2021
Biology
Genomics
Immunology
Alex K. Shalek
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics
  • Muus et al.,
  • Nature Medicine,
  • 2021
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Statistics
Sam Allon
Sarah Nyquist
Marc Wadsworth II
Carly Ziegler
Alex K. Shalek
A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2
  • Delorey et al.,
  • bioRxiv,
  • 2021
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Statistics
Carly Ziegler
Alex K. Shalek
Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19
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  • bioRxiv,
  • 2021
Biology
Genomics
Immunology
Infectious Disease
Microbiology
Carly Ziegler
Vincent Miao
Andrew Navia
Josh Bromley
Micayla George
Riley Drake
Alex K. Shalek
José Ordovas-Montañes
Longitudinal transcriptomics define the stages of myeloid activation in the living human brain after intracerebral hemorrhage
  • Askenase et al.,
  • Science Immunology,
  • 2021
Biology
Genomics
Immunology
Medicine
Brittany Goods
Shaina Carroll
Riley Drake
James Gatter
Alex K. Shalek
Spatiotemporal single-cell profiling reveals that invasive and tissue-resident memory donor CD8+ T cells drive gastrointestinal acute graft-versus-host disease
  • Tkachev et al.,
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  • 2021
Biology
Cell Atlas
Genomics
Immunology
Medicine
Jim Kaminski
José Ordovas-Montañes
Alex K. Shalek
Single cell profiling of COVID-19 patients: an international data resource from multiple tissues
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  • 2020
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Carly Ziegler
Vincent Miao
Andrew Navia
Josh Bromley
José Ordovas-Montañes
Alex K. Shalek
Lymph nodes are innervated by a unique population of sensory neurons with immunomodulatory potential
  • Huang et al.,
  • Cell,
  • 2020
Biology
Genomics
Immunology
Carly Ziegler
Marko Vukovic
José Ordovas-Montañes
Alex K. Shalek
Cyclin D3 drives inertial cell cycling in dark zone germinal center B cells
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  • 2020
Biology
Genomics
Immunology
Sam Allon
José Ordovas-Montañes
Alex K. Shalek
The Human Cell Atlas and equity: lessons learned
  • Majumder et al.,
  • Nature Medicine,
  • 2020
Cell Atlas
Genomics
Alex K. Shalek
Single cell and spatial transcriptomics defines the cellular architecture of the antimicrobial response network in human leprosy granulomas
  • Ma et al.,
  • bioRxiv,
  • 2020
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Travis Hughes
Marc Wadsworth II
Alex K. Shalek
Functional compensation precedes recovery of tissue mass following acute liver injury
  • Walesky et al.,
  • Nature Communications,
  • 2020
Biology
Genomics
Immunology
Kellie Kolb
Ira Fleming
Alex K. Shalek
Cyclin D3 drives inertial cell cycling in dark zone germinal center B cells
  • Pae et al.,
  • bioRxiv,
  • 2020
Biology
Genomics
Immunology
Sam Allon
José Ordovas-Montañes
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
Evolution and diversity of immune responses during acute HIV infection
  • Kazer et al.,
  • Immunity,
  • 2020
Biology
Immunology
Infectious Disease
Medicine
Sam Kazer
Alex K. Shalek
Leukocyte dynamics after intracerebral hemorrhage in a living patient reveal rapid adaptations to tissue milieu
  • Goods et al.,
  • biorXiv,
  • 2020
Biology
Genomics
Immunology
Medicine
Brittany Goods
Riley Drake
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
Single-cell profiling of ebola virus disease in vivo reveals viral and host dynamics
  • Kotliar et al.,
  • Cell,
  • 2020
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Travis Hughes
Marc Wadsworth II
Nancy Tran
Alex K. Shalek
Single-cell profiling of tuberculosis lung granulomas reveals functional lymphocyte signatures of bacterial control
  • Gideon et al.,
  • bioRxiv,
  • 2020
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Travis Hughes
Marc Wadsworth II
Conner Kummerlowe
Sarah Nyquist
José Ordovas-Montañes
Alex K. Shalek
Second-Strand Synthesis-Based Massively Parallel scRNA-Seq Reveals Cellular States and Molecular Features of Human Inflammatory Skin Pathologies
  • Hughes et al.,
  • Immunity,
  • 2020
Biology
Cell Atlas
Chemistry
Genomics
Immunology
R&D
Technology
Travis Hughes
Marc Wadsworth II
José Ordovas-Montañes
Alex K. Shalek
Improved haplotype inference by exploiting long-range linking and allelic imbalance in RNA-seq datasets
  • Berger et al.,
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  • 2020
Biology
Computational Methods
Statistics
Sarah Nyquist
Alex K. Shalek
Innate Lymphoid Cell Activation and Sustained Depletion in Blood and Tissue of Children Infected with HIV from Birth Despite Antiretroviral Therapy
  • Singh et al.,
  • Cell Reports,
  • 2020
Biology
Genomics
Immunology
Infectious Disease
Sam Kazer
Alex K. Shalek
The tumor microenvironment drives transcriptional phenotypes and their plasticity in metastatic pancreatic cancer
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  • 2020
Biology
Cancer
Cell Atlas
Computational Methods
Genomics
Immunology
Medicine
Technology
Peter Winter
Andrew Navia
Jennyfer Galvez-Reyes
Nolawit Mulugeta
Alex K. Shalek
A Single Human VH-gene Allows for a Broad-Spectrum Antibody Response Targeting Bacterial Lipopolysaccharides in the Blood
  • Sangesland et al.,
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  • 2020
Biology
Computational Methods
Genomics
Immunology
Infectious Disease
Sam Kazer
James Gatter
Alex K. Shalek
Single-Cell Analyses of Colon and Blood Reveal Distinct Immune Cell Signatures of Ulcerative Colitis and Crohn’s Disease
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  • 2020
Biology
Genomics
Immunology
José Ordovas-Montañes
Marko Vukovic
Alex K. Shalek
Spatiotemporal single-cell profiling of gastrointestinal GVHD reveals invasive and resident memory T cell states
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  • 2020
Biology
Genomics
Immunology
Jim Kaminski
José Ordovas-Montañes
Alex K. Shalek
Single-cell profiling of Ebola virus infection ​in vivo​ reveals viral and host transcriptional dynamics
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  • bioRxiv,
  • 2020
Biology
Genomics
Immunology
Infectious Disease
Travis Hughes
Marc Wadsworth II
Nancy Tran
Alex K. Shalek
Alterations of multiple alveolar macrophage states in chronic obstructive pulmonary disease
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  • 2020
Computational Methods
Genomics
Immunology
Medicine
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
Computational Methods for Single-Cell RNA Sequencing
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  • 2020
Biology
Computational Methods
Genomics
Sarah Nyquist
Alex K. Shalek
High-throughput organoid screening enables engineering of intestinal epithelial composition
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  • 2020
Biology
Genomics
Medicine
R&D
Technology
Ben Mead
Marko Vukovic
José Ordovas-Montañes
Alex K. Shalek
SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes
  • Sungnak et al.,
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  • 2020
Biology
Genomics
Immunology
Infectious Disease
José Ordovas-Montañes
Alex K. Shalek
SARS-CoV-2 receptor ACE2 is an interferon-stimulated gene in human airway epithelial cells and is detected in specific cell subsets across tissues
  • Ziegler et al.,
  • Cell,
  • 2020
Biology
Cell Atlas
Genomics
Immunology
Infectious Disease
Statistics
Carly Ziegler
Sam Allon
Sarah Nyquist
Vincent Miao
Constantine Tzouanas
Marc Wadsworth II
Sam Kazer
Travis Hughes
Benjamin Doran
James Gatter
Marko Vukovic
Ben Mead
Shaina Carroll
Alex K. Shalek
José Ordovas-Montañes
Integrated analyses of single-cell atlases reveal age, gender, and smoking status associations with cell type-specific expression of mediators of SARS-CoV-2 viral entry and highlights inflammatory programs in putative target cells
  • Muus et al.,
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  • 2020
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Statistics
Sam Allon
Sarah Nyquist
José Ordovas-Montañes
Marc Wadsworth II
Carly Ziegler
Alex K. Shalek
Single-cell analysis of upper airway cells reveals host-viral dynamics in influenza infected adults
  • Cao et al.,
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  • 2020
Biology
Genomics
Immunology
Infectious Disease
Microbiology
José Ordovas-Montañes
Alex K. Shalek
The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution
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  • Cell,
  • 2020
Biology
Cancer
Cell Atlas
Computational Methods
Genomics
Immunology
Medicine
Alex K. Shalek
Systematic comparison of single-cell and single-nucleus RNA-sequencing methods
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  • 2020
Computational Methods
Genomics
R&D
Technology
Travis Hughes
Marc Wadsworth II
Shaina Carroll
Alex K. Shalek
Integrated single-cell analysis of multicellular immune dynamics during hyperacute HIV-1 infection
  • Kazer et al.,
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  • 2020
Biology
Computational Methods
Genomics
Immunology
Infectious Disease
Statistics
Sam Kazer
Toby Aicher
Shaina Carroll
José Ordovas-Montañes
Vincent Miao
Carly Ziegler
Sarah Nyquist
Alex K. Shalek
SARS-CoV-2 receptor ACE2 is an interferon-stimulated gene in human airway epithelial cells and is enriched in specific cell subsets across tissues
  • Ziegler et al.,
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  • 2020
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Infectious Disease
Medicine
Carly Ziegler
Sam Allon
Sarah Nyquist
Vincent Miao
Marc Wadsworth II
Sam Kazer
Travis Hughes
Benjamin Doran
James Gatter
Marko Vukovic
Constantine Tzouanas
Shaina Carroll
Alex K. Shalek
José Ordovas-Montañes
Spatially-resolved live cell tagging and isolation using protected photoactivatable cell dyes
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  • 2020
Biology
Cancer
Chemistry
Genomics
R&D
Technology
Alex Genshaft
Carly Ziegler
Constantine Tzouanas
Ben Mead
Andrew Navia
Alex K. Shalek
Distribution and storage of inflammatory memory in barrier tissues
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Biology
Genomics
Immunology
Infectious Disease
José Ordovas-Montañes
Alex K. Shalek
Immunological Fingerprints of Controllers Developing Neutralizing HIV-1 Antibodies
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Biology
Genomics
Immunology
Infectious Disease
Medicine
Kellie Kolb
Alex K. Shalek
Identification of a master regulator of differentiation in toxoplasma
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  • 2020
Biology
Genomics
Immunology
Infectious Disease
Microbiology
Marc Wadsworth II
Alex K. Shalek
Prevention of tuberculosis in macaques after intravenous BCG immunization
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  • 2020
Biology
Genomics
Immunology
Infectious Disease
Medicine
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
TCR sequencing paired with massively parallel 3′ RNA-seq reveals clonotypic T cell signatures
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  • 2019
Biology
Cell Atlas
Genomics
Immunology
R&D
Technology
Alex K. Shalek
Revisiting airway epithelial remodeling in type 2 immunity: Beyond goblet cell metaplasia
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  • 2019
Biology
Genomics
Immunology
Alex K. Shalek
Sensory neurons innervate peripheral lymph nodes and locally regulate gene expression in postsynaptic endothelium, stromal cells, and innate leukocytes
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  • 2019
Biology
Cell Atlas
Computational Methods
Genomics
Immunology
Carly Ziegler
Marko Vukovic
José Ordovas-Montañes
Alex K. Shalek
Single-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degeneration
  • Menon et al.,
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  • 2019
Biology
Cell Atlas
Genomics
Immunology
Medicine
Brittany Goods
Alex K. Shalek
Induction of metabolic quiescence defines the transitional to follicular B cell switch
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Biology
Genomics
Immunology
Toby Aicher
Alex K. Shalek
The next quarter century
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Biology
Genomics
Immunology
Alex K. Shalek
Voices in methods development
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Computational Methods
Genomics
R&D
Technology
Alex K. Shalek
Germline-encoded affinity for cognate antigen enables vaccine amplification of a human broadly neutralizing response against influenza virus
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Biology
Genomics
Immunology
Infectious Disease
Medicine
Sam Kazer
Alex K. Shalek
Loss of DNA methyltransferase activity in primed human ES cells triggers increased cell-cell variability and transcriptional repression
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Biology
Genomics
Marc Wadsworth II
Sam Allon
Ben Mead
Riley Drake
Alex K. Shalek
Mitogenic and progenitor gene programmes in single pilocytic astrocytoma cells
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Biology
Cancer
Genomics
Medicine
Alex K. Shalek
A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases
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Biology
Computational Methods
Genomics
Immunology
Medicine
Alex K. Shalek
Intra- and inter-cellular rewiring of the human colon during ulcerative colitis
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Biology
Cell Atlas
Genomics
Immunology
José Ordovas-Montañes
Alex K. Shalek
Highly efficient, massively-parallel single-cell RNA-Seq reveals cellular states and molecular features of human skin pathology
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  • 2019
Biology
Genomics
Immunology
R&D
Technology
Travis Hughes
Marc Wadsworth II
José Ordovas-Montañes
Alex K. Shalek
Group 3 innate lymphoid cells mediate early protective immunity against tuberculosis
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Biology
Immunology
Infectious Disease
Sam Kazer
Alex K. Shalek
Identification of a Master Regulator of Differentiation in Toxoplasma
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Biology
Infectious Disease
Microbiology
Marc Wadsworth II
Alex K. Shalek
Integrated Single-Cell Analysis of Multicellular Immune Dynamics during Hyper-Acute HIV-1 Infection
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  • 2019
Biology
Genomics
Immunology
Infectious Disease
Sam Kazer
Toby Aicher
Shaina Carroll
José Ordovas-Montañes
Carly Ziegler
Sarah Nyquist
Alex K. Shalek
Seq-Well: A Sample-Efficient, Portable Picowell Platform for Massively Parallel Single-Cell RNA Sequencing
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R&D
Technology
Toby Aicher
Shaina Carroll
Marc Wadsworth II
Travis Hughes
Alex K. Shalek
Augmentation of HIV-specific T cell function by immediate treatment of hyperacute HIV-1 infection
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Genomics
Immunology
Medicine
Sam Kazer
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 Analysis of the Liver Epithelium Reveals Dynamic Heterogeneity and an Essential Role for YAP in Homeostasis and Regeneration
  • Pepe-Mooney et al.,
  • Cell Stem Cell,
  • 2019
Biology
Cell Atlas
Medicine
José Ordovas-Montañes
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
Selective expansion of myeloid and NK cells in humanized mice yields human-like vaccine responses
  • Douam F. et al.,
  • Nature Communications,
  • 2018
Biology
Genomics
Immunology
Infectious Disease
Alex K. Shalek
Carly Ziegler
T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation
  • Biton et al.,
  • Cell,
  • 2018
Genomics
Immunology
Medicine
José Ordovas-Montañes
Alex K. Shalek