An airway organoid-based screen identifies a role for the HIF1α-glycolysis axis in SARS-CoV-2 infection

Revealing Tissue-Specific SARS-CoV-2 Infection and Host Responses using Human Stem Cell-Derived Lung and Cerebral Organoids

(2021) Shashi Kant Tiwari et al.   Stem Cell Reports

Reconstructed Single-Cell Fate Trajectories Define Lineage Plasticity Windows during Differentiation of Human PSC-Derived Distal Lung Progenitors

(2020) Killian Hurley et al.   Cell Stem Cell

Imbalanced Host Response to SARS-CoV-2 Drives Development of COVID-19

(2020) Daniel Blanco-Melo et al.   CELL

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

(2020) Carly G.K. Ziegler et al.   CELL

Inhibition of SARS-CoV-2 Infections in Engineered Human Tissues Using Clinical-Grade Soluble Human ACE2

(2020) Vanessa Monteil et al.   CELL

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor

(2020) Markus Hoffmann et al.   CELL

Proteomics of SARS-CoV-2-infected host cells reveals therapy targets

(2020) Denisa Bojkova et al.   NATURE

Infection of bat and human intestinal organoids by SARS-CoV-2

(2020) Jie Zhou et al.   NATURE MEDICINE

Cell entry mechanisms of SARS-CoV-2

(2020) Jian Shang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SARS-CoV-2 productively infects human gut enterocytes

(2020) Mart M. Lamers et al.   SCIENCE

Characterization of spike glycoprotein of SARS-CoV-2 on virus entry and its immune cross-reactivity with SARS-CoV

(2020) Xiuyuan Ou et al.   Nature Communications

Factors associated with hospital admission and critical illness among 5279 people with coronavirus disease 2019 in New York City: prospective cohort study

(2020) Christopher M Petrilli et al.   BMJ-British Medical Journal

Recapitulation of SARS-CoV-2 infection and cholangiocyte damage with human liver ductal organoids

(2020) Bing Zhao et al.   Protein & Cell

Elevated Glucose Levels Favor SARS-CoV-2 Infection and Monocyte Response through a HIF-1α/Glycolysis-Dependent Axis

(2020) Ana Campos Codo et al.   Cell Metabolism

SARS-CoV-2 infects human neural progenitor cells and brain organoids

(2020) Bao-Zhong Zhang et al.   CELL RESEARCH

A Human Pluripotent Stem Cell-based Platform to Study SARS-CoV-2 Tropism and Model Virus Infection in Human Cells and Organoids

(2020) Liuliu Yang et al.   Cell Stem Cell

Characteristics and predictors of death among 4,035 consecutively hospitalized patients with COVID-19 in Spain

(2020) Juan Berenguer et al.   CLINICAL MICROBIOLOGY AND INFECTION

Derivation of Airway Basal Stem Cells from Human Pluripotent Stem Cells

(2020) Finn J. Hawkins et al.   Cell Stem Cell

Human Pluripotent Stem Cell-Derived Neural Cells and Brain Organoids Reveal SARS-CoV-2 Neurotropism Predominates in Choroid Plexus Epithelium

(2020) Fadi Jacob et al.   Cell Stem Cell

Human lung stem cell-based alveolospheres provide insights into SARS-CoV-2 mediated interferon responses and pneumocyte dysfunction

(2020) Hiroaki Katsura et al.   Cell Stem Cell

SARS ‐CoV‐2 targets neurons of 3D human brain organoids

(2020) Anand Ramani et al.   EMBO JOURNAL

Neuropilin-1 is a host factor for SARS-CoV-2 infection

(2020) James L. Daly et al.   SCIENCE

Neuropilin-1 facilitates SARS-CoV-2 cell entry and infectivity

(2020) Ludovico Cantuti-Castelvetri et al.   SCIENCE

HIF-1α Modulates Core Metabolism and Virus Replication in Primary Airway Epithelial Cells Infected with Respiratory Syncytial Virus

(2020) Dorothea R. Morris et al.   Viruses-Basel

Androgen Signaling Regulates SARS-CoV-2 Receptor Levels and Is Associated with Severe COVID-19 Symptoms in Men

(2020) Ryan M. Samuel et al.   Cell Stem Cell

An organoid‐derived bronchioalveolar model for SARS‐CoV‐2 infection of human alveolar type II‐like cells

(2020) Mart M Lamers et al.   EMBO JOURNAL

A molecular cell atlas of the human lung from single-cell RNA sequencing

(2020) Kyle J. Travaglini et al.   NATURE

Progenitor identification and SARS-CoV-2 infection in human distal lung organoids

(2020) Ameen A. Salahudeen et al.   NATURE

Host metabolism dysregulation and cell tropism identification in human airway and alveolar organoids upon SARS-CoV-2 infection

(2020) Rongjuan Pei et al.   Protein & Cell

Generation of pulmonary neuroendocrine cells and SCLC-like tumors from human embryonic stem cells

(2019) Huanhuan Joyce Chen et al.   JOURNAL OF EXPERIMENTAL MEDICINE

CCR7 Chemokine Receptor-Inducible lnc-Dpf3 Restrains Dendritic Cell Migration by Inhibiting HIF-1α-Mediated Glycolysis

(2019) Juan Liu et al.   IMMUNITY

Extracellular vesicle-packaged HIF-1α-stabilizing lncRNA from tumour-associated macrophages regulates aerobic glycolysis of breast cancer cells

(2019) Fei Chen et al.   NATURE CELL BIOLOGY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Fatty acid synthase and stearoyl-CoA desaturase-1 are conserved druggable cofactors of Old World Alphavirus genome replication

(2019) William Bakhache et al.   ANTIVIRAL RESEARCH

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

A revised airway epithelial hierarchy includes CFTR-expressing ionocytes

(2018) Daniel T. Montoro et al.   NATURE

Prospective isolation of NKX2-1–expressing human lung progenitors derived from pluripotent stem cells

(2017) Finn Hawkins et al.   JOURNAL OF CLINICAL INVESTIGATION

A three-dimensional model of human lung development and disease from pluripotent stem cells

(2017) Ya-Wen Chen et al.   NATURE CELL BIOLOGY

Single-cell sequencing reveals dissociation-induced gene expression in tissue subpopulations

(2017) Susanne C van den Brink et al.   NATURE METHODS

Isotopic Ratio Outlier Analysis of the S. cerevisiae Metabolome Using Accurate Mass Gas Chromatography/Time-of-Flight Mass Spectrometry: A New Method for Discovery

(2016) Yunping Qiu et al.   ANALYTICAL CHEMISTRY

Inhibition of acetyl-CoA carboxylase suppresses fatty acid synthesis and tumor growth of non-small-cell lung cancer in preclinical models

(2016) Robert U Svensson et al.   NATURE MEDICINE

Xanthohumol Improves Diet-induced Obesity and Fatty Liver by Suppressing Sterol Regulatory Element-binding Protein (SREBP) Activation

(2015) Shingo Miyata et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The in vitro generation of lung and airway progenitor cells from human pluripotent stem cells

(2015) Sarah X L Huang et al.   Nature Protocols

In vitro generation of human pluripotent stem cell derived lung organoids

(2015) Briana R Dye et al.   eLife

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Integrated physiology and systems biology of PPARα

(2014) Sander Kersten   Molecular Metabolism

Modulation of Fatty Acid Synthase Enzyme Activity and Expression during Hepatitis C Virus Replication

(2013) Neda Nasheri et al.   CHEMISTRY & BIOLOGY

Efficient generation of lung and airway epithelial cells from human pluripotent stem cells

(2013) Sarah X L Huang et al.   NATURE BIOTECHNOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Generation of Multipotent Lung and Airway Progenitors from Mouse ESCs and Patient-Specific Cystic Fibrosis iPSCs

(2012) Hongmei Mou et al.   Cell Stem Cell

Lipids at the interface of virus–host interactions

(2012) Vineela Chukkapalli et al.   CURRENT OPINION IN MICROBIOLOGY

Multifaceted roles for lipids in viral infection

(2011) Nicholas S. Heaton et al.   TRENDS IN MICROBIOLOGY

Inhibition of phospholipid biosynthesis decreases the activity of the tombusvirus replicase and alters the subcellular localization of replication proteins

(2011) Monika Sharma et al.   VIROLOGY

Role of Lipids in Virus Replication

(2011) M. Lorizate et al.   Cold Spring Harbor Perspectives in Biology

Efficient hepatitis C virus particle formation requires diacylglycerol acyltransferase-1

(2010) Eva Herker et al.   NATURE MEDICINE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Inhibition of Sterol Biosynthesis Reduces Tombusvirus Replication in Yeast and Plants

(2009) M. Sharma et al.   JOURNAL OF VIROLOGY