Lung Basal Stem Cells Rapidly Repair DNA Damage Using the Error-Prone Nonhomologous End-Joining Pathway

Positive18Fluorodeoxyglucose-Positron Emission Tomography/Computed Tomography Predicts Preinvasive Endobronchial Lesion Progression to Invasive Cancer

(2016) Francesco Fraioli et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Targeted Type 2 Alveolar Cell Depletion. A Dynamic Functional Model for Lung Injury Repair

(2016) Orquidea Garcia et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

SOX2 Is the Determining Oncogenic Switch in Promoting Lung Squamous Cell Carcinoma from Different Cells of Origin

(2016) Giustina Ferone et al.   CANCER CELL

The genomic characteristics and cellular origin of chromothripsis

(2016) Zuzana Storchová et al.   CURRENT OPINION IN CELL BIOLOGY

Distinct patterns of somatic genome alterations in lung adenocarcinomas and squamous cell carcinomas

(2016) Joshua D Campbell et al.   NATURE GENETICS

Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results

(2015) Mumtahena Rahman et al.   BIOINFORMATICS

Chromosomal instability, tolerance of mitotic errors and multidrug resistance are promoted by tetraploidization in human cells

(2015) Anastasia Y Kuznetsova et al.   CELL CYCLE

Differential Phosphorylation of DNA-PKcs Regulates the Interplay between End-Processing and End-Ligation during Nonhomologous End-Joining

(2015) Wenxia Jiang et al.   MOLECULAR CELL

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Bleomycin in the setting of lung fibrosis induction: From biological mechanisms to counteractions

(2015) Veronica Della Latta et al.   PHARMACOLOGICAL RESEARCH

Telomere dysfunction causes alveolar stem cell failure

(2015) Jonathan K. Alder et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plasticity of Hopx+ type I alveolar cells to regenerate type II cells in the lung

(2015) Rajan Jain et al.   Nature Communications

Mice with Pulmonary Fibrosis Driven by Telomere Dysfunction

(2015) Juan M. Povedano et al.   Cell Reports

Clonal Dynamics Reveal Two Distinct Populations of Basal Cells in Slow-Turnover Airway Epithelium

(2015) Julie K. Watson et al.   Cell Reports

Mammary Stem Cells and Tumor-Initiating Cells Are More Resistant to Apoptosis and Exhibit Increased DNA Repair Activity in Response to DNA Damage

(2015) Chi-Hsuan Chang et al.   Stem Cell Reports

Cellular Mechanisms of Tissue Fibrosis. 7. New insights into the cellular mechanisms of pulmonary fibrosis

(2014) Christina E. Barkauskas et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

Airway Basal Cells. The “Smoking Gun” of Chronic Obstructive Pulmonary Disease

(2014) Ronald G. Crystal   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Loss of Lkb1 and Pten Leads to Lung Squamous Cell Carcinoma with Elevated PD-L1 Expression

(2014) Chunxiao Xu et al.   CANCER CELL

Repair and Regeneration of the Respiratory System: Complexity, Plasticity, and Mechanisms of Lung Stem Cell Function

(2014) Brigid L.M. Hogan et al.   Cell Stem Cell

Dynamic Changes in Intracellular ROS Levels Regulate Airway Basal Stem Cell Homeostasis through Nrf2-Dependent Notch Signaling

(2014) Manash K. Paul et al.   Cell Stem Cell

Comprehensive molecular profiling of lung adenocarcinoma

(2014) Eric A. Collisson et al.   NATURE

Multiple cells-of-origin of mutant K-Ras–induced mouse lung adenocarcinoma

(2014) Kate D. Sutherland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sox2 Cooperates with Lkb1 Loss in a Mouse Model of Squamous Cell Lung Cancer

(2014) Anandaroop Mukhopadhyay et al.   Cell Reports

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

The Pivotal Role of IKKα in the Development of Spontaneous Lung Squamous Cell Carcinomas

(2013) Zuoxiang Xiao et al.   CANCER CELL

The Role of Telomeres in Stem Cells and Cancer

(2013) Cagatay Günes et al.   CELL

Clinical management patterns and treatment outcomes in patients with non-small cell lung cancer (NSCLC) across Europe: EPICLIN-Lung study

(2013) A. Carrato et al.   CURRENT MEDICAL RESEARCH AND OPINION

Type 2 alveolar cells are stem cells in adult lung

(2013) Christina E. Barkauskas et al.   JOURNAL OF CLINICAL INVESTIGATION

Signatures of mutational processes in human cancer

(2013) Ludmil B. Alexandrov et al.   NATURE

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

P21-PARP-1 Pathway Is Involved in Cigarette Smoke-Induced Lung DNA Damage and Cellular Senescence

(2013) Hongwei Yao et al.   PLoS One

Stochastic homeostasis in human airway epithelium is achieved by neutral competition of basal cell progenitors

(2013) Vitor H Teixeira et al.   eLife

Regulation of human lung alveolar multipotent cells by a novel p38α MAPK/miR-17-92 axis

(2012) Feride Oeztuerk-Winder et al.   EMBO JOURNAL

Comprehensive genomic characterization of squamous cell lung cancers

(2012)   NATURE

Complex reorganization and predominant non-homologous repair following chromosomal breakage in karyotypically balanced germline rearrangements and transgenic integration

(2012) Colby Chiang et al.   NATURE GENETICS

Evidence for type II cells as cells of origin of K-Ras-induced distal lung adenocarcinoma

(2012) X. Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Constitutional Chromothripsis Rearrangements Involve Clustered Double-Stranded DNA Breaks and Nonhomologous Repair Mechanisms

(2012) Wigard P. Kloosterman et al.   Cell Reports

Isolation and In Vitro Characterization of Basal and Submucosal Gland Duct Stem/Progenitor Cells from Human Proximal Airways

(2012) Ahmed E. Hegab et al.   Stem Cells Translational Medicine

Cell of Origin of Small Cell Lung Cancer: Inactivation of Trp53 and Rb1 in Distinct Cell Types of Adult Mouse Lung

(2011) Kate D. Sutherland et al.   CANCER CELL

Distal Airway Stem Cells Yield Alveoli In Vitro and during Lung Regeneration following H1N1 Influenza Infection

(2011) Pooja A. Kumar et al.   CELL

DNA repair by nonhomologous end joining and homologous recombination during cell cycle in human cells

(2011) Zhiyong Mao et al.   CELL CYCLE

Cigarette smoking increases copy number alterations in nonsmall-cell lung cancer

(2011) Y.-T. Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ROAST: rotation gene set tests for complex microarray experiments

(2010) Di Wu et al.   BIOINFORMATICS

Hematopoietic Stem Cell Quiescence Promotes Error-Prone DNA Repair and Mutagenesis

(2010) Mary Mohrin et al.   Cell Stem Cell

Airway basal stem cells: a perspective on their roles in epithelial homeostasis and remodeling

(2010) J. R. Rock et al.   Disease Models & Mechanisms

HTII-280, a Biomarker Specific to the Apical Plasma Membrane of Human Lung Alveolar Type II Cells

(2010) Robert F. Gonzalez et al.   JOURNAL OF HISTOCHEMISTRY & CYTOCHEMISTRY

Cross-species genomics matches driver mutations and cell compartments to model ependymoma

(2010) Robert A. Johnson et al.   NATURE

Bcl-2 and accelerated DNA repair mediates resistance of hair follicle bulge stem cells to DNA-damage-induced cell death

(2010) Panagiota A. Sotiropoulou et al.   NATURE CELL BIOLOGY

Evidence of an epithelial stem/progenitor cell hierarchy in the adult mouse lung

(2010) J. L. McQualter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Testing significance relative to a fold-change threshold is a TREAT

(2009) D. J. McCarthy et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Genetics of COPD and Emphysema

(2009) Emily S. Wan et al.   CHEST

Aberrant luminal progenitors as the candidate target population for basal tumor development in BRCA1 mutation carriers

(2009) Elgene Lim et al.   NATURE MEDICINE

DNA Damage, Aging, and Cancer

(2009) Jan H.J. Hoeijmakers   NEW ENGLAND JOURNAL OF MEDICINE

Telomere length measurement by a novel monochrome multiplex quantitative PCR method

(2009) R. M. Cawthon   NUCLEIC ACIDS RESEARCH

Basal cells as stem cells of the mouse trachea and human airway epithelium

(2009) J. R. Rock et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA