Transcriptional and proteomic insights into the host response in fatal COVID-19 cases

Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China

(2020) Chaolin Huang et al.   LANCET

A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

A Novel Coronavirus from Patients with Pneumonia in China, 2019

(2020) Na Zhu et al.   NEW ENGLAND JOURNAL OF MEDICINE

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

(2020) Daniel Blanco-Melo 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

Management of COVID-19 Respiratory Distress

(2020) John J. Marini et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

A SARS-CoV-2 protein interaction map reveals targets for drug repurposing

(2020) David E. Gordon et al.   NATURE

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

(2020) Mingfeng Liao et al.   NATURE MEDICINE

Pulmonary Vascular Endothelialitis, Thrombosis, and Angiogenesis in Covid-19

(2020) Maximilian Ackermann et al.   NEW ENGLAND JOURNAL OF MEDICINE

Pulmonary and cardiac pathology in African American patients with COVID-19: an autopsy series from New Orleans

(2020) Sharon E Fox et al.   Lancet Respiratory Medicine

Manifestations and prognosis of gastrointestinal and liver involvement in patients with COVID-19: a systematic review and meta-analysis

(2020) Ren Mao et al.   Lancet Gastroenterology & Hepatology

Severe COVID-19 is marked by a dysregulated myeloid cell compartment

(2020) Jonas Schulte-Schrepping et al.   CELL

Elevated calprotectin and abnormal myeloid cell subsets discriminate severe from mild COVID-19

(2020) Aymeric Silvin et al.   CELL

Generation of a Broadly Useful Model for COVID-19 Pathogenesis, Vaccination, and Treatment

(2020) Jing Sun et al.   CELL

Elevated serum levels of S100A8/A9 and HMGB1 at hospital admission are correlated with inferior clinical outcomes in COVID-19 patients

(2020) Liting Chen et al.   Cellular & Molecular Immunology

A systematic review of pathological findings in COVID-19: a pathophysiological timeline and possible mechanisms of disease progression

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Discovery of SARS-CoV-2 antiviral drugs through large-scale compound repurposing

(2020) Laura Riva et al.   NATURE

A single-cell atlas of the peripheral immune response in patients with severe COVID-19

(2020) Aaron J. Wilk et al.   NATURE MEDICINE

Dexamethasone in Hospitalized Patients with Covid-19 — Preliminary Report

(2020)   NEW ENGLAND JOURNAL OF MEDICINE

Genomewide Association Study of Severe Covid-19 with Respiratory Failure

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Pathogenesis of COVID-19 from the Perspective of the Damage-Response Framework

(2020) Liise-anne Pirofski et al.   mBio

Semaphorins and Their Roles in Airway Biology: Potential as Therapeutic Targets

(2018) Hesam Movassagh et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Nociceptor sensory neurons suppress neutrophil and γδ T cell responses in bacterial lung infections and lethal pneumonia

(2018) Pankaj Baral et al.   NATURE MEDICINE

Pulmonary neuroendocrine cells amplify allergic asthma responses

(2018) Pengfei Sui et al.   SCIENCE

S100A8/A9 in Inflammation

(2018) Siwen Wang et al.   Frontiers in Immunology

Molecular signatures of neutrophil extracellular traps in human visceral leishmaniasis

(2017) Luiz Gustavo Gardinassi et al.   Parasites & Vectors

Pulmonary neuroendocrine cells function as airway sensors to control lung immune response

(2016) K. Branchfield et al.   SCIENCE

Myeloid-related protein 8 induces self-tolerance and cross-tolerance to bacterial infection via TLR4- and TLR2-mediated signal pathways

(2015) Andrew P. Coveney et al.   Scientific Reports

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

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Chronology of histological lesions in acute respiratory distress syndrome with diffuse alveolar damage: a prospective cohort study of clinical autopsies

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RNA-SeQC: RNA-seq metrics for quality control and process optimization

(2012) David S. DeLuca et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Platelets induce neutrophil extracellular traps in transfusion-related acute lung injury

(2012) Axelle Caudrillier et al.   JOURNAL OF CLINICAL INVESTIGATION

Global Evaluation of Eph Receptors and Ephrins in Lung Adenocarcinomas Identifies EphA4 as an Inhibitor of Cell Migration and Invasion

(2012) P. Saintigny et al.   MOLECULAR CANCER THERAPEUTICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Proteomic workflow for analysis of archival formalin-fixed and paraffin-embedded clinical samples to a depth of 10 000 proteins

(2012) Jacek R. Wiśniewski et al.   Proteomics Clinical Applications

Extracellular DNA traps promote thrombosis

(2010) T. A. Fuchs et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

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AmiGO: online access to ontology and annotation data

(2008) Seth Carbon et al.   BIOINFORMATICS