Modeling plasticity and dysplasia of pancreatic ductal organoids derived from human pluripotent stem cells

Long-term expansion, genomic stability and in vivo safety of adult human pancreas organoids

(2020) Nikitas Georgakopoulos et al.   BMC DEVELOPMENTAL BIOLOGY

SUMO pathway inhibition targets an aggressive pancreatic cancer subtype

(2020) Alexander Biederstädt et al.   GUT

Targeting the cytoskeleton to direct pancreatic differentiation of human pluripotent stem cells

(2020) Nathaniel J. Hogrebe et al.   NATURE BIOTECHNOLOGY

Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution

(2020) Michelle Chan-Seng-Yue et al.   NATURE GENETICS

Pancreatic cancer-derived organoids – a disease modeling tool to predict drug response

(2020) Pierre-Olivier Frappart et al.   United European Gastroenterology Journal

Single-cell resolution analysis of the human pancreatic ductal progenitor cell niche

(2020) Mirza Muhammad Fahd Qadir et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Implementing cell-free DNA of pancreatic cancer patient–derived organoids for personalized oncology

(2020) Zahra Dantes et al.   JCI Insight

Pancreatic Progenitors and Organoids as a Prerequisite to Model Pancreatic Diseases and Cancer

(2019) Meike Hohwieler et al.   Stem Cells International

The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads

(2019) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

Induced pluripotent stem cells in disease modelling and drug discovery

(2019) R. Grant Rowe et al.   NATURE REVIEWS GENETICS

Cell composition analysis of bulk genomics using single-cell data

(2019) Amit Frishberg et al.   NATURE METHODS

TMT labeling for the masses: A robust and cost-efficient, in-solution labeling approach

(2019) Jana Zecha et al.   MOLECULAR & CELLULAR PROTEOMICS

Mouse pancreatic ductal organoid culture as a relevant model to study exocrine pancreatic ion secretion

(2019) Réka Molnár et al.   LABORATORY INVESTIGATION

Human Pancreatic Tumor Organoids Reveal Loss of Stem Cell Niche Factor Dependence during Disease Progression

(2018) Takashi Seino et al.   Cell Stem Cell

EMT Subtype Influences Epithelial Plasticity and Mode of Cell Migration

(2018) Nicole M. Aiello et al.   DEVELOPMENTAL CELL

Loss of Pten and Activation of Kras Synergistically Induce Formation of Intraductal Papillary Mucinous Neoplasia From Pancreatic Ductal Cells in Mice

(2018) Janel L. Kopp et al.   GASTROENTEROLOGY

Successful creation of pancreatic cancer organoids by means of EUS-guided fine-needle biopsy sampling for personalized cancer treatment

(2018) Herve Tiriac et al.   GASTROINTESTINAL ENDOSCOPY

Cell of origin affects tumour development and phenotype in pancreatic ductal adenocarcinoma

(2018) Alex Y L Lee et al.   GUT

Mutant GNAS drives pancreatic tumourigenesis by inducing PKA-mediated SIK suppression and reprogramming lipid metabolism

(2018) Krushna C. Patra et al.   NATURE CELL BIOLOGY

Clinical and Radiographic Gastrointestinal Abnormalities in McCune-Albright Syndrome

(2018) Cemre Robinson et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes

(2018) Sebastian Mueller et al.   NATURE

Subtyping of intraductal papillary mucinous neoplasms – pitfalls of MUC 1 immunohistochemistry

(2018) Pia Klausen et al.   APMIS

Stratification of Pancreatic Ductal Adenocarcinomas Based on Tumor and Microenvironment Features

(2018) Francesco Puleo et al.   GASTROENTEROLOGY

GNASR201C Induces Pancreatic Cystic Neoplasms in Mice That Express Activated KRAS by Inhibiting YAP1 Signaling

(2018) Noboru Ideno et al.   GASTROENTEROLOGY

The dynamic nature of senescence in cancer

(2018) Soyoung Lee et al.   NATURE CELL BIOLOGY

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

Single-Cell Transcriptome Profiling of Mouse and hESC-Derived Pancreatic Progenitors

(2018) Nicole A.J. Krentz et al.   Stem Cell Reports

Pharmacoproteomic characterisation of human colon and rectal cancer

(2017) Martin Frejno et al.   Molecular Systems Biology

CDKN2B deletion is essential for pancreatic cancer development instead of unmeaningful co-deletion due to juxtaposition to CDKN2A

(2017) Q Tu et al.   ONCOGENE

Patients with McCune-Albright syndrome have a broad spectrum of abnormalities in the gastrointestinal tract and pancreas

(2017) Laura D. Wood et al.   VIRCHOWS ARCHIV

Glycoprotein 2 is a specific cell surface marker of human pancreatic progenitors

(2017) Kathryn F. Cogger et al.   Nature Communications

Duct- and Acinar-Derived Pancreatic Ductal Adenocarcinomas Show Distinct Tumor Progression and Marker Expression

(2017) Rute M.M. Ferreira et al.   Cell Reports

Diversity of Precursor Lesions For Pancreatic Cancer: The Genetics and Biology of Intraductal Papillary Mucinous Neoplasm

(2017) Krushna C Patra et al.   Clinical and Translational Gastroenterology

Stepwise Clearance of Repressive Roadblocks Drives Cardiac Induction in Human ESCs

(2016) Jyoti Rao et al.   Cell Stem Cell

Human pluripotent stem cell-derived acinar/ductal organoids generate human pancreas upon orthotopic transplantation and allow disease modelling

(2016) Meike Hohwieler et al.   GUT

RelA regulates CXCL1/CXCR2-dependent oncogene-induced senescence in murine Kras-driven pancreatic carcinogenesis

(2016) Marina Lesina et al.   JOURNAL OF CLINICAL INVESTIGATION

Structure-Based Optimization of Potent, Selective, and Orally Bioavailable CDK8 Inhibitors Discovered by High-Throughput Screening

(2016) Paul Czodrowski et al.   JOURNAL OF MEDICINAL CHEMISTRY

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

(2016) Faiyaz Notta et al.   NATURE

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Exocrine pancreatic function in children with Alagille syndrome

(2016) Dorota Gliwicz et al.   Scientific Reports

Modeling Cystic Fibrosis Using Pluripotent Stem Cell-Derived Human Pancreatic Ductal Epithelial Cells

(2016) Senem Simsek et al.   Stem Cells Translational Medicine

An integrative transcriptomic atlas of organogenesis in human embryos

(2016) Dave T Gerrard et al.   eLife

Developmental Pathways Direct Pancreatic Cancer Initiation from Its Cellular Origin

(2016) Maximilian Reichert et al.   Stem Cells International

A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure

(2016) Maayan Baron et al.   Cell Systems

Tumor Budding: The Name is EMT. Partial EMT.

(2016) Alexandru Grigore et al.   Journal of Clinical Medicine

The impact of amplification on differential expression analyses by RNA-seq

(2016) Swati Parekh et al.   Scientific Reports

Sambamba: fast processing of NGS alignment formats

(2015) Artem Tarasov et al.   BIOINFORMATICS

Organoid Models of Human and Mouse Ductal Pancreatic Cancer

(2015) Sylvia F. Boj et al.   CELL

Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis

(2015) Jacob H. Levine et al.   CELL

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Distinct Roles of β-Cell Mass and Function During Type 1 Diabetes Onset and Remission

(2015) Helena Chmelova et al.   DIABETES

Alcohol Disrupts Levels and Function of the Cystic Fibrosis Transmembrane Conductance Regulator to Promote Development of Pancreatitis

(2015) József Maléth et al.   GASTROENTEROLOGY

A Combination of Molecular Markers and Clinical Features Improve the Classification of Pancreatic Cysts

(2015) Simeon Springer et al.   GASTROENTEROLOGY

GNAS and KRAS Mutations Define Separate Progression Pathways in Intraductal Papillary Mucinous Neoplasm-Associated Carcinoma

(2015) Marcus C. Tan et al.   JOURNAL OF THE AMERICAN COLLEGE OF SURGEONS

GNAS mutations are not detected in parosteal and low-grade central osteosarcomas

(2015) Carolina Salinas-Souza et al.   MODERN PATHOLOGY

Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma

(2015) Richard A Moffitt et al.   NATURE GENETICS

Ductal pancreatic cancer modeling and drug screening using human pluripotent stem cell– and patient-derived tumor organoids

(2015) Ling Huang et al.   NATURE MEDICINE

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

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

Whole Genome Sequencing Defines the Genetic Heterogeneity of Familial Pancreatic Cancer

(2015) N. J. Roberts et al.   Cancer Discovery

Efficient Generation of NKX6-1+ Pancreatic Progenitors from Multiple Human Pluripotent Stem Cell Lines

(2015) M. Cristina Nostro et al.   Stem Cell Reports

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Projecting Cancer Incidence and Deaths to 2030: The Unexpected Burden of Thyroid, Liver, and Pancreas Cancers in the United States

(2014) L. Rahib et al.   CANCER RESEARCH

Dynamic Chromatin Remodeling Mediated by Polycomb Proteins Orchestrates Pancreatic Differentiation of Human Embryonic Stem Cells

(2013) Ruiyu Xie et al.   Cell Stem Cell

Enhanced Efficiency of Human Pluripotent Stem Cell Genome Editing through Replacing TALENs with CRISPRs

(2013) Qiurong Ding et al.   Cell Stem Cell

Hepatobiliary and Pancreatic Neoplasms in Patients With McCune-Albright Syndrome

(2013) Sébastien Gaujoux et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

Causes and consequences of replication stress

(2013) Michelle K. Zeman et al.   NATURE CELL BIOLOGY

A functional CFTR assay using primary cystic fibrosis intestinal organoids

(2013) Johanna F Dekkers et al.   NATURE MEDICINE

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

The Cystic Fibrosis of Exocrine Pancreas

(2013) M. Wilschanski et al.   Cold Spring Harbor Perspectives in Medicine

Definitive Endoderm Formation from Plucked Human Hair-Derived Induced Pluripotent Stem Cells and SK Channel Regulation

(2013) Anett Illing et al.   Stem Cells International

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Maturation of Human Embryonic Stem Cell-Derived Pancreatic Progenitors Into Functional Islets Capable of Treating Pre-existing Diabetes in Mice

(2012) A. Rezania et al.   DIABETES

Inhibition of activin/nodal signalling is necessary for pancreatic differentiation of human pluripotent stem cells

(2012) C. H.-H. Cho et al.   DIABETOLOGIA

Induction of mouse pancreatic ductal differentiation, an in vitro assay

(2012) Julie A. Rhodes et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-ANIMAL

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Convergent structural alterations define SWItch/Sucrose NonFermentable (SWI/SNF) chromatin remodeler as a central tumor suppressive complex in pancreatic cancer

(2012) A. H. Shain et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lentiviral Vector Design and Imaging Approaches to Visualize the Early Stages of Cellular Reprogramming

(2011) Eva Warlich et al.   MOLECULAR THERAPY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Cellular features of senescence during the evolution of human and murine ductal pancreatic cancer

(2011) M E Caldwell et al.   ONCOGENE

Recurrent GNAS Mutations Define an Unexpected Pathway for Pancreatic Cyst Development

(2011) J. Wu et al.   Science Translational Medicine

Rat Embryonic Fibroblasts Improve Reprogramming of Human Keratinocytes into Induced Pluripotent Stem Cells

(2011) Leonhard Linta et al.   STEM CELLS AND DEVELOPMENT

Epidermal Growth Factor Receptor and Mutant p53 Expand an Esophageal Cellular Subpopulation Capable of Epithelial-to-Mesenchymal Transition through ZEB Transcription Factors

(2010) S. Ohashi et al.   CANCER RESEARCH

Intrinsic Cooperation between p16INK4a and p21Waf1/Cip1 in the Onset of Cellular Senescence and Tumor Suppression In vivo

(2010) S. Takeuchi et al.   CANCER RESEARCH

Epithelial dynamics of pancreatic branching morphogenesis

(2010) A. Villasenor et al.   DEVELOPMENT

Nkx6 Transcription Factors and Ptf1a Function as Antagonistic Lineage Determinants in Multipotent Pancreatic Progenitors

(2010) Ashleigh E. Schaffer et al.   DEVELOPMENTAL CELL

Cdc42-Mediated Tubulogenesis Controls Cell Specification

(2009) Gokul Kesavan et al.   CELL

Ductal Malformation and Pancreatitis in Mice Caused by Conditional Jag1 Deletion

(2009) Maria L. Golson et al.   GASTROENTEROLOGY

The structure and function of G-protein-coupled receptors

(2009) Daniel M. Rosenbaum et al.   NATURE

Mutant p53 drives metastasis and overcomes growth arrest/senescence in pancreatic cancer

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

Induction of EMT by Twist Proteins as a Collateral Effect of Tumor-Promoting Inactivation of Premature Senescence

(2008) Stéphane Ansieau et al.   CANCER CELL

Oncogene-Induced Senescence Relayed by an Interleukin-Dependent Inflammatory Network

(2008) Thomas Kuilman et al.   CELL

Fast unfolding of communities in large networks

(2008) Vincent D Blondel et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY