Isolation of high-yield and -quality RNA from human precision-cut lung slices for RNA-sequencing and computational integration with larger patient cohorts

Applications and Approaches for 3D Precision-cut Lung Slices: Disease Modeling and Drug Discovery

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Publisher Correction: Accurate estimation of cell composition in bulk expression through robust integration of single-cell information

(2020) Brandon Jew et al.   Nature Communications

Single-cell RNA-seq reveals ectopic and aberrant lung-resident cell populations in idiopathic pulmonary fibrosis

(2020) Taylor S. Adams et al.   Science Advances

Single-cell RNA sequencing reveals profibrotic roles of distinct epithelial and mesenchymal lineages in pulmonary fibrosis

(2020) Arun C. Habermann et al.   Science Advances

Generation of Human 3D Lung Tissue Cultures (3D-LTCs) for Disease Modeling

(2019) Michael Gerckens et al.   Jove-Journal of Visualized Experiments

Lung on a Chip for drug screening and design

(2019) Ahmet Akif Kızılkurtlu et al.   CURRENT PHARMACEUTICAL DESIGN

A spatially restricted fibrotic niche in pulmonary fibrosis is sustained by M-CSF/M-CSFR signaling in monocyte-derived alveolar macrophages

(2019) Nikita Joshi et al.   EUROPEAN RESPIRATORY JOURNAL

Transcriptomic evidence of immune activation in macroscopically normal-appearing and scarred lung tissues in idiopathic pulmonary fibrosis

(2018) Irina G. Luzina et al.   CELLULAR IMMUNOLOGY

Rationally Designed 3D Hydrogels Model Invasive Lung Diseases Enabling High-Content Drug Screening

(2018) Roger Y. Tam et al.   ADVANCED MATERIALS

Single-Cell Transcriptomic Analysis of Human Lung Provides Insights into the Pathobiology of Pulmonary Fibrosis

(2018) Paul A Reyfman et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Molecular characterization of a precision-cut rat lung slice model for the evaluation of antifibrotic drugs

(2018) Xinqiang Huang et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Preclinical validation and imaging of Wnt-induced repair in human 3D lung tissue cultures

(2015) Franziska E. Uhl et al.   EUROPEAN RESPIRATORY JOURNAL

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

RNA-seq: impact of RNA degradation on transcript quantification

(2014) Irene Gallego Romero et al.   BMC BIOLOGY

A critical evaluation of in vitro cell culture models for high-throughput drug screening and toxicity

(2012) Anna Astashkina et al.   PHARMACOLOGY & THERAPEUTICS