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

Integration of Genomic and Transcriptional Features in Pancreatic Cancer Reveals Increased Cell Cycle Progression in Metastases

(2019) Ashton A. Connor et al.   CANCER CELL

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Stromal Microenvironment Shapes the Intratumoral Architecture of Pancreatic Cancer

(2019) Matteo Ligorio et al.   CELL

EMT Subtype Influences Epithelial Plasticity and Mode of Cell Migration

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

Organoid profiling identifies common responders to chemotherapy in pancreatic cancer

(2018) Hervé Tiriac et al.   Cancer Discovery

Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes

(2018) Sebastian Mueller et al.   NATURE

Stratification of Pancreatic Ductal Adenocarcinomas Based on Tumor and Microenvironment Features

(2018) Francesco Puleo et al.   GASTROENTEROLOGY

Limited heterogeneity of known driver gene mutations among the metastases of individual patients with pancreatic cancer

(2017) Alvin P Makohon-Moore et al.   NATURE GENETICS

Epigenomic reprogramming during pancreatic cancer progression links anabolic glucose metabolism to distant metastasis

(2017) Oliver G McDonald et al.   NATURE GENETICS

Association of Distinct Mutational Signatures With Correlates of Increased Immune Activity in Pancreatic Ductal Adenocarcinoma

(2017) Ashton A. Connor et al.   JAMA Oncology

Mutant Kras copy number defines metabolic reprogramming and therapeutic susceptibilities

(2016) Emma M. Kerr et al.   NATURE

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

(2016) Faiyaz Notta et al.   NATURE

Genomic analyses identify molecular subtypes of pancreatic cancer

(2016) Peter Bailey et al.   NATURE

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

A Single-Cell Transcriptome Atlas of the Human Pancreas

(2016) Mauro J. Muraro et al.   Cell Systems

Organoid Models of Human and Mouse Ductal Pancreatic Cancer

(2015) Sylvia F. Boj et al.   CELL

Time to progression of pancreatic ductal adenocarcinoma from low-to-high tumour stages

(2015) Jun Yu et al.   GUT

Whole genomes redefine the mutational landscape of pancreatic cancer

(2015) Nicola Waddell et al.   NATURE

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

(2015) Richard A Moffitt et al.   NATURE GENETICS

PD-1 Blockade in Tumors with Mismatch-Repair Deficiency

(2015) Dung T. Le et al.   NEW ENGLAND JOURNAL OF MEDICINE

Whole-exome sequencing of pancreatic cancer defines genetic diversity and therapeutic targets

(2015) Agnieszka K. Witkiewicz et al.   Nature Communications

Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes

(2014) Mark D M Leiserson et al.   NATURE GENETICS

KRAS mutant allele-specific imbalance is associated with worse prognosis in pancreatic cancer and progression to undifferentiated carcinoma of the pancreas

(2013) Alyssa M Krasinskas et al.   MODERN PATHOLOGY

Mutational heterogeneity in cancer and the search for new cancer-associated genes

(2013) Michael S. Lawrence et al.   NATURE

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

(2013) Kristian Cibulskis et al.   NATURE BIOTECHNOLOGY

Pan-cancer patterns of somatic copy number alteration

(2013) Travis I Zack et al.   NATURE GENETICS

Strelka: accurate somatic small-variant calling from sequenced tumor–normal sample pairs

(2012) Christopher T. Saunders et al.   BIOINFORMATICS

DELLY: structural variant discovery by integrated paired-end and split-read analysis

(2012) T. Rausch et al.   BIOINFORMATICS

Gata6is required for complete acinar differentiation and maintenance of the exocrine pancreas in adult mice

(2012) Paola Martinelli et al.   GUT

Pancreatic cancer genomes reveal aberrations in axon guidance pathway genes

(2012) Andrew V. Biankin et al.   NATURE

Subtypes of pancreatic ductal adenocarcinoma and their differing responses to therapy

(2011) Eric A Collisson et al.   NATURE MEDICINE

CREST maps somatic structural variation in cancer genomes with base-pair resolution

(2011) Jianmin Wang et al.   NATURE METHODS

ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

(2010) Matthew D. Wilkerson et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

The patterns and dynamics of genomic instability in metastatic pancreatic cancer

(2010) Peter J. Campbell et al.   NATURE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

A Gene Expression Signature Associated with “K-Ras Addiction” Reveals Regulators of EMT and Tumor Cell Survival

(2009) Anurag Singh et al.   CANCER CELL

Core Signaling Pathways in Human Pancreatic Cancers Revealed by Global Genomic Analyses

(2008) S. Jones et al.   SCIENCE