Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer

Outcome measures in multimodal rectal cancer trials

(2020) Emmanouil Fokas et al.   LANCET ONCOLOGY

Lineage-dependent gene expression programs influence the immune landscape of colorectal cancer

(2020) Hae-Ock Lee et al.   NATURE GENETICS

DIVERSITY AND BIOLOGY OF CANCER-ASSOCIATED FIBROBLASTS

(2020) Giulia Biffi et al.   PHYSIOLOGICAL REVIEWS

Single-cell analysis reveals fibroblast clusters linked to immunotherapy resistance in cancer

(2020) Yann Kieffer et al.   Cancer Discovery

AKT-dependent NOTCH3 activation drives tumor progression in a model of mesenchymal colorectal cancer

(2020) Julia Varga et al.   JOURNAL OF EXPERIMENTAL MEDICINE

A Wnt-induced phenotypic switch in cancer-associated fibroblasts inhibits EMT in colorectal cancer

(2020) Mohammed H. Mosa et al.   CANCER RESEARCH

Human colon organoids reveal distinct physiologic and oncogenic Wnt responses

(2019) Birgitta E. Michels et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Inflammation and Cancer: Triggers, Mechanisms, and Consequences

(2019) Florian R. Greten et al.   IMMUNITY

Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts

(2019) Ela Elyada et al.   Cancer Discovery

Proteomic analyses of ECM during pancreatic ductal adenocarcinoma progression reveal different contributions by tumor and stromal cells

(2019) Chenxi Tian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Patient-Derived Organoids Predict Chemoradiation Responses of Locally Advanced Rectal Cancer

(2019) Ye Yao et al.   Cell Stem Cell

A rectal cancer organoid platform to study individual responses to chemoradiation

(2019) Karuna Ganesh et al.   NATURE MEDICINE

Neoadjuvant rectal score as individual-level surrogate for disease-free survival in rectal cancer in the CAO/ARO/AIO-04 randomized phase III trial

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Reconstruction of the Human Colon Epithelium In Vivo

(2018) Shinya Sugimoto et al.   Cell Stem Cell

Comparative proteomics reveals a diagnostic signature for pulmonary head‐and‐neck cancer metastasis

(2018) Hanibal Bohnenberger et al.   EMBO Molecular Medicine

Optimized libraries for CRISPR-Cas9 genetic screens with multiple modalities

(2018) Kendall R. Sanson et al.   Nature Communications

IL-1-induced JAK/STAT signaling is antagonized by TGF-beta to shape CAF heterogeneity in pancreatic ductal adenocarcinoma

(2018) Giulia Biffi et al.   Cancer Discovery

Colorectal cancer susceptibility loci as predictive markers of rectal cancer prognosis after surgery

(2017) Yue Hu et al.   GENES CHROMOSOMES & CANCER

Distinct populations of inflammatory fibroblasts and myofibroblasts in pancreatic cancer

(2017) Daniel Öhlund et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Characterization of the Extracellular Matrix of Normal and Diseased Tissues Using Proteomics

(2017) Alexandra Naba et al.   JOURNAL OF PROTEOME RESEARCH

Tumor Regression Grading After Preoperative Chemoradiotherapy as a Prognostic Factor and Individual-Level Surrogate for Disease-Free Survival in Rectal Cancer

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Extended Multiplexing of Tandem Mass Tags (TMT) Labeling Reveals Age and High Fat Diet Specific Proteome Changes in Mouse Epididymal Adipose Tissue

(2017) Deanna L. Plubell et al.   MOLECULAR & CELLULAR PROTEOMICS

Reference component analysis of single-cell transcriptomes elucidates cellular heterogeneity in human colorectal tumors

(2017) Huipeng Li et al.   NATURE GENETICS

Single-cell sequencing reveals dissociation-induced gene expression in tissue subpopulations

(2017) Susanne C van den Brink et al.   NATURE METHODS

CMScaller: an R package for consensus molecular subtyping of colorectal cancer pre-clinical models

(2017) Peter W. Eide et al.   Scientific Reports

Tumor Regression Grading After Preoperative Chemoradiotherapy as a Prognostic Factor and Individual-Level Surrogate for Disease-Free Survival in Rectal Cancer

(2017) Emmanouil Fokas et al.   JNCI-Journal of the National Cancer Institute

Rectal cancer: Neoadjuvant chemoradiotherapy

(2016) Claus Rödel et al.   BEST PRACTICE & RESEARCH IN CLINICAL GASTROENTEROLOGY

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

A Single-Cell Transcriptome Atlas of the Human Pancreas

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

IKKβ acts as a tumor suppressor in cancer-associated fibroblasts during intestinal tumorigenesis

(2015) Charles K. Pallangyo et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Stromal contribution to the colorectal cancer transcriptome

(2015) Claudio Isella et al.   NATURE GENETICS

The consensus molecular subtypes of colorectal cancer

(2015) Justin Guinney et al.   NATURE MEDICINE

Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver

(2014) Alexandra Naba et al.   BMC CANCER

Validation of noise models for single-cell transcriptomics

(2014) Dominic Grün et al.   NATURE METHODS

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

(2013) Y. Liao et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Preoperative Versus Postoperative Chemoradiotherapy for Locally Advanced Rectal Cancer: Results of the German CAO/ARO/AIO-94 Randomized Phase III Trial After a Median Follow-Up of 11 Years

(2012) Rolf Sauer et al.   JOURNAL OF CLINICAL ONCOLOGY

Preoperative radiotherapy combined with total mesorectal excision for resectable rectal cancer: 12-year follow-up of the multicentre, randomised controlled TME trial

(2011) Willem van Gijn et al.   LANCET ONCOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY