Epithelial memory of inflammation limits tissue damage while promoting pancreatic tumorigenesis

Visualization of stem cell activity in pancreatic cancer expansion by direct lineage tracing with live imaging

(2021) Takahisa Maruno et al.   eLife

A gene–environment-induced epigenetic program initiates tumorigenesis

(2021) Direna Alonso-Curbelo et al.   NATURE

Tuft Cell Formation Reflects Epithelial Plasticity in Pancreatic Injury: Implications for Modeling Human Pancreatitis

(2020) Kathleen E. DelGiorno et al.   Frontiers in Physiology

Single-Cell Analyses Inform Mechanisms of Myeloid-Targeted Therapies in Colon Cancer

(2020) Lei Zhang et al.   CELL

Discovery of a selective inhibitor of doublecortin like kinase 1

(2020) Fleur M. Ferguson et al.   Nature Chemical Biology

Somatic Mutations Increase Hepatic Clonal Fitness and Regeneration in Chronic Liver Disease

(2019) Min Zhu et al.   CELL

Co-optation of Tandem DNA Repeats for the Maintenance of Mesenchymal Identity

(2018) Chiara Balestrieri et al.   CELL

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

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Single-cell profiling of breast cancer T cells reveals a tissue-resident memory subset associated with improved prognosis

(2018) Peter Savas et al.   NATURE MEDICINE

Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma

(2018) Moshe Sade-Feldman et al.   CELL

Inflammatory memory sensitizes skin epithelial stem cells to tissue damage

(2017) Shruti Naik et al.   NATURE

Acinar cell plasticity and development of pancreatic ductal adenocarcinoma

(2017) Peter Storz   Nature Reviews Gastroenterology & Hepatology

Epithelial-Myeloid cell crosstalk regulates acinar cell plasticity and pancreatic remodeling in mice

(2017) Yaqing Zhang et al.   eLife

Dclk1 Defines Quiescent Pancreatic Progenitors that Promote Injury-Induced Regeneration and Tumorigenesis

(2016) C. Benedikt Westphalen et al.   Cell Stem Cell

Three-dimensional pancreas organogenesis models

(2016) A. Grapin-Botton   DIABETES OBESITY & METABOLISM

Dissection of transcriptional andcis‐regulatory control of differentiation in human pancreatic cancer

(2016) Giuseppe R Diaferia et al.   EMBO JOURNAL

Genetics and biology of pancreatic ductal adenocarcinoma

(2016) Haoqiang Ying et al.   GENES & DEVELOPMENT

A renewed model of pancreatic cancer evolution based on genomic rearrangement patterns

(2016) Faiyaz Notta et al.   NATURE

Reparative inflammation takes charge of tissue regeneration

(2016) Michael Karin et al.   NATURE

p53 mutations cooperate with oncogenic Kras to promote adenocarcinoma from pancreatic ductal cells

(2015) J M Bailey et al.   ONCOGENE

Yap1 Activation Enables Bypass of Oncogenic Kras Addiction in Pancreatic Cancer

(2014) Avnish Kapoor et al.   CELL

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

mTORC1 controls the adaptive transition of quiescent stem cells from G0 to GAlert

(2014) Joseph T. Rodgers et al.   NATURE

Oncogene ablation-resistant pancreatic cancer cells depend on mitochondrial function

(2014) Andrea Viale et al.   NATURE

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

(2013) Y. Liao et al.   BIOINFORMATICS

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

Exploiting inflammation for therapeutic gain in pancreatic cancer

(2013) C W Steele et al.   BRITISH JOURNAL OF CANCER

Interleukin-6 Is Required for Pancreatic Cancer Progression by Promoting MAPK Signaling Activation and Oxidative Stress Resistance

(2013) Y. Zhang et al.   CANCER RESEARCH

DCLK1 Marks a Morphologically Distinct Subpopulation of Cells With Stem Cell Properties in Preinvasive Pancreatic Cancer

(2013) Jennifer M. Bailey et al.   GASTROENTEROLOGY

The Prrx1 homeodomain transcription factor plays a central role in pancreatic regeneration and carcinogenesis

(2013) M. Reichert et al.   GENES & DEVELOPMENT

Macrophage-secreted cytokines drive pancreatic acinar-to-ductal metaplasia through NF-κB and MMPs

(2013) Geou-Yarh Liou et al.   JOURNAL OF CELL BIOLOGY

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

Identification of Sox9-Dependent Acinar-to-Ductal Reprogramming as the Principal Mechanism for Initiation of Pancreatic Ductal Adenocarcinoma

(2012) Janel L. Kopp et al.   CANCER CELL

Oncogenic Kras Maintains Pancreatic Tumors through Regulation of Anabolic Glucose Metabolism

(2012) Haoqiang Ying et al.   CELL

Presence of Somatic Mutations in Most Early-Stage Pancreatic Intraepithelial Neoplasia

(2012) Mitsuro Kanda et al.   GASTROENTEROLOGY

NF- B, the first quarter-century: remarkable progress and outstanding questions

(2012) M. S. Hayden et al.   GENES & DEVELOPMENT

Role of the ductal transcription factors HNF6 and Sox9 in pancreatic acinar-to-ductal metaplasia

(2012) Pierre-Paul Prévot et al.   GUT

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

Maintenance of acinar cell organization is critical to preventing Kras-induced acinar-ductal metaplasia

(2012) G Shi et al.   ONCOGENE

Pancreatitis-Induced Inflammation Contributes to Pancreatic Cancer by Inhibiting Oncogene-Induced Senescence

(2011) Carmen Guerra et al.   CANCER CELL

Stat3 and MMP7 Contribute to Pancreatic Ductal Adenocarcinoma Initiation and Progression

(2011) Akihisa Fukuda et al.   CANCER CELL

Stat3/Socs3 Activation by IL-6 Transsignaling Promotes Progression of Pancreatic Intraepithelial Neoplasia and Development of Pancreatic Cancer

(2011) Marina Lesina et al.   CANCER CELL

DCAMKL-1 Regulates Epithelial-Mesenchymal Transition in Human Pancreatic Cells through a miR-200a-Dependent Mechanism

(2011) S. M. Sureban et al.   CANCER RESEARCH

Inflammation and wound healing: the role of the macrophage

(2011) Timothy J. Koh et al.   EXPERT REVIEWS IN MOLECULAR MEDICINE

Lineage Tracing Evidence for Transdifferentiation of Acinar to Duct Cells and Plasticity of Human Pancreas

(2011) Isabelle Houbracken et al.   GASTROENTEROLOGY

Identification of a novel putative pancreatic stem/progenitor cell marker DCAMKL-1 in normal mouse pancreas

(2010) Randal May et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Immunity, Inflammation, and Cancer

(2010) Sergei I. Grivennikov et al.   CELL

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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

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

IL-6 and Stat3 Are Required for Survival of Intestinal Epithelial Cells and Development of Colitis-Associated Cancer

(2009) Sergei Grivennikov et al.   CANCER CELL

Context-Dependent Transformation of Adult Pancreatic Cells by Oncogenic K-Ras

(2009) Sharon Y. Gidekel Friedlander et al.   CANCER CELL

IFNα activates dormant haematopoietic stem cells in vivo

(2009) Marieke A. G. Essers et al.   NATURE

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Cancer-related inflammation

(2008) Alberto Mantovani et al.   NATURE

Spontaneous induction of murine pancreatic intraepithelial neoplasia (mPanIN) by acinar cell targeting of oncogenic Kras in adult mice

(2008) N. Habbe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY