Association of CXCR6 with COVID-19 severity: delineating the host genetic factors in transcriptomic regulation

Discriminating mild from critical COVID-19 by innate and adaptive immune single-cell profiling of bronchoalveolar lavages

(2021) Els Wauters et al.   CELL RESEARCH

Investigating Cellular Trajectories in the Severity of COVID-19 and Their Transcriptional Programs Using Machine Learning Approaches

(2021) Hyun-Hwan Jeong et al.   Genes

Characteristics of and Important Lessons From the Coronavirus Disease 2019 (COVID-19) Outbreak in China

(2020) Zunyou Wu et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Diverse types of genomic evidence converge on alcohol use disorder risk genes

(2020) Yulin Dai et al.   JOURNAL OF MEDICAL GENETICS

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

(2020) Mingfeng Liao et al.   NATURE MEDICINE

Sex differential in COVID-19 mortality varies markedly by age

(2020) Sunil S Bhopal et al.   LANCET

Genomewide Association Study of Severe Covid-19 with Respiratory Failure

(2020) David Ellinghaus et al.   NEW ENGLAND JOURNAL OF MEDICINE

The GTEx Consortium atlas of genetic regulatory effects across human tissues

(2020)   SCIENCE

Differential Expression of Viral Transcripts From Single-Cell RNA Sequencing of Moderate and Severe COVID-19 Patients and Its Implications for Case Severity

(2020) Teng Liu et al.   Frontiers in Microbiology

Genetic Spectrum and Distinct Evolution Patterns of SARS-CoV-2

(2020) Sheng Liu et al.   Frontiers in Microbiology

Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19

(2020) Joana P. Bernardes et al.   IMMUNITY

Apoptosis‐Induced T Cell Lymphopenia Is Related to COVID‐19 Severity

(2020) Ahmet Cizmecioglu et al.   JOURNAL OF MEDICAL VIROLOGY

Genetic mechanisms of critical illness in Covid-19

(2020) Erola Pairo-Castineira et al.   NATURE

CSEA-DB: an omnibus for human complex trait and cell type associations

(2020) Yulin Dai et al.   NUCLEIC ACIDS RESEARCH

DrivAER: Identification of driving transcriptional programs in single-cell RNA sequencing data

(2020) Lukas M Simon et al.   GigaScience

Single-cell RNA-seq denoising using a deep count autoencoder

(2019) Gökcen Eraslan et al.   Nature Communications

Opportunities and challenges for transcriptome-wide association studies

(2019) Michael Wainberg et al.   NATURE GENETICS

Single-cell transcriptomic analysis of Alzheimer’s disease

(2019) Hansruedi Mathys et al.   NATURE

A Convergent Study of Genetic Variants Associated With Crohn’s Disease: Evidence From GWAS, Gene Expression, Methylation, eQTL and TWAS

(2019) Yulin Dai et al.   Frontiers in Genetics

PhenoScanner V2: an expanded tool for searching human genotype–phenotype associations

(2019) Mihir A Kamat et al.   BIOINFORMATICS

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Single-Cell Signature Explorer for comprehensive visualization of single cell signatures across scRNA-seq datasets

(2019) Frédéric Pont et al.   NUCLEIC ACIDS RESEARCH

Location, location, location: Tissue resident memory T cells in mice and humans

(2019) Peter A. Szabo et al.   Science Immunology

CXCR6 regulates localization of tissue-resident memory CD8 T cells to the airways

(2019) Alexander N. Wein et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Tissue‐resident innate immunity in the lung

(2019) Amanda Ardain et al.   IMMUNOLOGY

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics

(2018) Kelly Street et al.   BMC GENOMICS

RSAT 2018: regulatory sequence analysis tools 20th anniversary

(2018) Nga Thi Thuy Nguyen et al.   NUCLEIC ACIDS RESEARCH

Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics

(2018) Alvaro N. Barbeira et al.   Nature Communications

Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression

(2018) Benjamin J. Schmiedel et al.   CELL

USF1 deficiency alleviates inflammation, enhances cholesterol efflux and prevents cholesterol accumulation in macrophages

(2018) Maija Ruuth et al.   Lipids in Health and Disease

Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions

(2018) Sarah M. Urbut et al.   NATURE GENETICS

The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019

(2018) Annalisa Buniello et al.   NUCLEIC ACIDS RESEARCH

Defining Memory CD8 T Cell

(2018) Matthew D. Martin et al.   Frontiers in Immunology

TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions

(2017) Heonjong Han et al.   NUCLEIC ACIDS RESEARCH

Human Tissue-Resident Memory T Cells Are Defined by Core Transcriptional and Functional Signatures in Lymphoid and Mucosal Sites

(2017) Brahma V. Kumar et al.   Cell Reports

Integrating molecular QTL data into genome-wide genetic association analysis: Probabilistic assessment of enrichment and colocalization

(2017) Xiaoquan Wen et al.   PLoS Genetics

Role of Memory T Cells in Allograft Rejection and Tolerance

(2017) Gilles Benichou et al.   Frontiers in Immunology

Colocalization of GWAS and eQTL Signals Detects Target Genes

(2016) Farhad Hormozdiari et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Identification of context-dependent expression quantitative trait loci in whole blood

(2016) Daria V Zhernakova et al.   NATURE GENETICS

Programs for the persistence, vigilance and control of human CD8+ lung-resident memory T cells

(2016) Pleun Hombrink et al.   NATURE IMMUNOLOGY

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

A global reference for human genetic variation

(2015) Richard A. Gibbs et al.   NATURE

A gene-based association method for mapping traits using reference transcriptome data

(2015) Eric R Gamazon et al.   NATURE GENETICS

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity

(2014) Matthew T. Weirauch et al.   CELL

Bayesian Test for Colocalisation between Pairs of Genetic Association Studies Using Summary Statistics

(2014) Claudia Giambartolomei et al.   PLoS Genetics

Transcriptional downregulation of S1pr1 is required for the establishment of resident memory CD8+ T cells

(2013) Cara N Skon et al.   NATURE IMMUNOLOGY

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

ChromHMM: automating chromatin-state discovery and characterization

(2012) Jason Ernst et al.   NATURE METHODS

Characterization of CCR9 expression and thymus-expressed chemokine responsiveness of the murine thymus, spleen and mesenteric lymph node

(2011) Han-Sung Lee et al.   IMMUNOBIOLOGY