Tumor collagens predict genetic features and patient outcomes

Article Oncology

Somatic mutations in collagens are associated with a distinct tumor environment and overall survival in gastric cancer

Alexander S. Brodsky et al.

Summary: This study identified frequent somatic mutations in collagens in stomach adenocarcinomas, which are associated with tumor microenvironment, treatment response, and patient outcomes.

BMC CANCER (2022)

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Article Oncology

Functional precision oncology: Testing tumors with drugs to identify vulnerabilities and novel combinations

Anthony Letai et al.

Summary: Functional precision medicine is a strategy that provides personalized treatment guidance based on the immediate response of live tumor cells. The heterogeneity of human cancer requires personalized approaches for improved treatment outcomes. Traditional precision oncology relies on static tumor features, but only a small proportion of individuals benefit from this approach. Functional precision medicine can provide additional information on tumor vulnerabilities.

CANCER CELL (2022)

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Review Oncology

The role of network-forming collagens in cancer progression

Jin Zhang et al.

Summary: Collagens, as the main components of extracellular matrix in the tumor microenvironment, play crucial roles in tumor progression. Both fibrillar and nonfibrillar collagens are involved, with the nonfibrillar network-forming collagens, such as type IV and type VIII collagens, frequently overexpressed in human cancers, promoting tumor cell proliferation, adhesion, invasion, metastasis, and angiogenesis.

INTERNATIONAL JOURNAL OF CANCER (2022)

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Article Multidisciplinary Sciences

Spatiotemporal analysis of glioma heterogeneity reveals COL1A1 as an actionable target to disrupt tumor progression

Andrea Comba et al.

Summary: This study investigates the dynamic anatomical structures called oncostreams in high grade gliomas (HGG) and their regulation by COL1A1. The researchers found that oncostreams play a role in tumor growth and aggression, facilitating the distribution of tumor and non-tumor cells within the tumor and potentially contributing to the invasion of normal brain tissue. They also discovered that COL1A1 is a central gene in the organization of oncostreams and a powerful regulator of glioma malignant behavior. Inhibiting COL1A1 can eliminate oncostreams and alter the tumor microenvironment, leading to reduced expression of mesenchymal associated genes and extended survival in animal models.

NATURE COMMUNICATIONS (2022)

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Article Oncology

Type IV collagen as a potential biomarker of metastatic breast cancer

Moa Lindgren et al.

Summary: This study found that levels of cCOLIV and cCA15-3 were significantly elevated in mBC patients, with high levels of cCOLIV correlating with poorer survival. Both cCOLIV alone and in combination with cCA15-3 were superior to cCA15-3 alone in detecting mBC. COL IV was highly expressed in the tissue of LM and BM, suggesting cCOLIV as a potential marker for monitoring BC patients.

CLINICAL & EXPERIMENTAL METASTASIS (2021)

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Article Cell Biology

Human gastrointestinal epithelia of the esophagus, stomach, and duodenum resolved at single-cell resolution

Georg A. Busslinger et al.

Summary: The upper gastrointestinal tract, including the esophagus, stomach, and duodenum, controls different functions such as food transport, digestion, and hormone production. Through single-cell analysis, distinct cell types have been identified in these organs, with specific populations like quiescent stem/progenitor cells and rare BCHE cells in the esophagus and duodenum respectively. Gene expression varies significantly between identical cell types in different organs, and there are unique cell types like serotonin-producing enterochromaffin cells and histamine-producing enterochromaffin-like cells that express additional hormones such as luteinizing hormone.

CELL REPORTS (2021)

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Review Oncology

Collagen Type XI Alpha 1 (COL11A1): A Novel Biomarker and a Key Player in Cancer

Sameera Nallanthighal et al.

Summary: COL11A1 is not only increased in cancers, but high levels are associated with poor clinical outcomes, promoting tumor cell aggressiveness through multiple mechanisms. This review discusses the biological functions of COL11A1 in cancer and highlights its role as a promising biomarker and key player in cancer.

CANCERS (2021)

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Article Multidisciplinary Sciences

Suppression of pancreatic ductal adenocarcinoma growth and metastasis by fibrillar collagens produced selectively by tumor cells

Chenxi Tian et al.

Summary: The ECM of pancreatic ductal adenocarcinoma has partially uncleaved C-terminal prodomains of fibrillar collagens, indicating reduced procollagen C-proteinase activity. The enzyme BMP1 selectively suppresses tumor growth and metastasis in cells expressing high levels of COL1A1. Cancer-cell-derived fibrillar collagen plays a role in selectively restraining tumor growth.

NATURE COMMUNICATIONS (2021)

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Review Oncology

Aneuploidy as a promoter and suppressor of malignant growth

Anand Vasudevan et al.

Summary: Aneuploidy, although frequent in human tumors, is not always a driver of cancer development and can have tumor-suppressive effects. The specific consequences of aneuploidy are context-dependent and influenced by genetic and environmental factors.

NATURE REVIEWS CANCER (2021)

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Review Genetics & Heredity

Context is everything: aneuploidy in cancer

Uri Ben-David et al.

NATURE REVIEWS GENETICS (2020)

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Article Oncology

Cancer Cell-Derived Matrisome Proteins Promote Metastasis in Pancreatic Ductal Adenocarcinoma

Chenxi Tian et al.

CANCER RESEARCH (2020)

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Review Oncology

The Role of Collagen XVII in Cancer: Squamous Cell Carcinoma and Beyond

Virginia A. Jones et al.

FRONTIERS IN ONCOLOGY (2020)

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Article Biochemistry & Molecular Biology

Machine Learning Identifies Robust Matrisome Markers and Regulatory Mechanisms in Cancer

Anni Kaariainen et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2020)

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Review Cell Biology

The cancer matrisome: From comprehensive characterization to biomarker discovery

Alexandra M. Socovich et al.

SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY (2019)

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Review Oncology

Collagens and Cancer associated fibroblasts in the reactive stroma and its relation to Cancer biology

Neel I. Nissen et al.

JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH (2019)

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Article Multidisciplinary Sciences

Stem cell competition orchestrates skin homeostasis and ageing

Nan Liu et al.

NATURE (2019)

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Article Multidisciplinary Sciences

Collagen XXV promotes myoblast fusion during myogenic differentiation and muscle formation

Tristan J. M. Goncalves et al.

SCIENTIFIC REPORTS (2019)

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Article Biochemical Research Methods

Gene set meta-analysis with Quantitative Set Analysis for Gene Expression (QuSAGE)

Hailong Meng et al.

PLOS COMPUTATIONAL BIOLOGY (2019)

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Review Oncology

Isocitrate Dehydrogenase Mutations in Glioma: From Basic Discovery to Therapeutics Development

Juan Huang et al.

FRONTIERS IN ONCOLOGY (2019)

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Article Cell & Tissue Engineering

Lgr5 and Col22a1 Mark Progenitor Cells in the Lineage toward Juvenile Articular Chondrocytes

Chen Feng et al.

STEM CELL REPORTS (2019)

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Review Gastroenterology & Hepatology

Wnt-β-catenin signalling in liver development, health and disease

Maria J. Perugorria et al.

NATURE REVIEWS GASTROENTEROLOGY & HEPATOLOGY (2019)

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Article Oncology

Genomic and Functional Approaches to Understanding Cancer Aneuploidy

Alison M. Taylor et al.

CANCER CELL (2018)

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Article Biochemistry & Molecular Biology

Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer

Katherine A. Hoadley et al.

CELL (2018)

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Article Oncology

A Pan-cancer Landscape of Interactions between Solid Tumors and Infiltrating Immune Cell Populations

David Tamborero et al.

CLINICAL CANCER RESEARCH (2018)

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Article Immunology

The Immune Landscape of Cancer

Vesteinn Thorsson et al.

IMMUNITY (2018)

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Review Oncology

Targeting the tumour stroma to improve cancer therapy

Kenneth C. Valkenburg et al.

NATURE REVIEWS CLINICAL ONCOLOGY (2018)

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Article Oncology

IDH mutation status is associated with distinct vascular gene expression signatures in lower-grade gliomas

Lei Zhang et al.

NEURO-ONCOLOGY (2018)

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Article Biochemical Research Methods

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

Alexandra Naba et al.

JOURNAL OF PROTEOME RESEARCH (2017)

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Review Biochemistry & Molecular Biology

Putting p53 in Context

Edward R. Kastenhuber et al.

CELL (2017)

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Article Oncology

Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma

Andrew J. Aguirre et al.

CANCER CELL (2017)

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Article Oncology

Bile acids destabilise HIF-1α and promote anti-tumour phenotypes in cancer cell models

J. P. Phelan et al.

BMC CANCER (2016)

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Article Oncology

Identification of stromal ColXα1 and tumor-infiltrating lymphocytes as putative predictive markers of neoadjuvant therapy in estrogen receptor-positive/HER2-positive breast cancer

Alexander S. Brodsky et al.

BMC CANCER (2016)

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Review Biochemistry & Molecular Biology

The extracellular matrix modulates the hallmarks of cancer

Michael W. Pickup et al.

EMBO REPORTS (2014)

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Article Multidisciplinary Sciences

Expression Profiling of Primary and Metastatic Ovarian Tumors Reveals Differences Indicative of Aggressive Disease

Alexander S. Brodsky et al.

PLOS ONE (2014)

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Article Medicine, Research & Experimental

Collagen VII plays a dual role in wound healing

Alexander Nystroem et al.

JOURNAL OF CLINICAL INVESTIGATION (2013)

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Article Biochemistry & Molecular Biology

Quantitative set analysis for gene expression: a method to quantify gene set differential expression including gene-gene correlations

Gur Yaari et al.

NUCLEIC ACIDS RESEARCH (2013)

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Editorial Material Oncology

The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data

Ethan Cerami et al.

CANCER DISCOVERY (2012)

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Article Multidisciplinary Sciences

Integrated genomic analyses of ovarian carcinoma

D. Bell et al.

NATURE (2011)

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Article Cell Biology

The Collagen Family

Sylvie Ricard-Blum

COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2011)

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Review Cell Biology

TGF-β-induced epithelial to mesenchymal transition

Jian Xu et al.

CELL RESEARCH (2009)

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Article Multidisciplinary Sciences

Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1

David A. Barbie et al.

NATURE (2009)

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Article Biochemistry & Molecular Biology

A stroma-related gene signature predicts resistance to neoadjuvant chemotherapy in breast cancer

Pierre Farmer et al.

NATURE MEDICINE (2009)

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Article Oncology

Fibroblast growth factor receptor 3 mutations in bladder tumors correlate with low frequency of chromosome alterations

Kerstin Junker et al.

NEOPLASIA (2008)

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Article Biochemistry & Molecular Biology

Bifunctional promoter of type IV collagen COL4A5 and COL4A6 genes regulates the expression of α5 and α6 chains in a distinct cell-specific fashion

M Sund et al.

BIOCHEMICAL JOURNAL (2005)

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Article Statistics & Probability

Estimating the number of clusters in a data set via the gap statistic

R Tibshirani et al.

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY (2001)

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Tumor collagens predict genetic features and patient outcomes

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