4.5 Article

Single cell RNA-seq analysis with a systems biology approach to recognize important differentially expressed genes in pancreatic ductal adenocarcinoma compared to adjacent non-cancerous samples by targeting pancreatic endothelial cells

Related references

Note: Only part of the references are listed.
Article Pathology

The role of circular RNAs in pancreatic cancer: new players in tumorigenesis and potential biomarkers

Arezou Sayad et al.

Summary: Circular RNAs (circRNAs) are a class of non-coding RNAs (ncRNAs) with distinct structure from other RNAs, produced by back-splicing from protein coding genes. They play roles in various physiological processes and are associated with diseases, including cancer. This review summarizes cellular experiments and potential clinical applications of circRNAs in pancreatic cancer.

PATHOLOGY RESEARCH AND PRACTICE (2022)

Review Oncology

Single Cell RNA Sequencing: A New Frontier in Pancreatic Ductal Adenocarcinoma

Maroun Bou Zerdan et al.

Summary: Pancreatic cancer has a low survival rate due to difficulties in early diagnosis. Understanding the molecular features and metabolic pathways of pancreatic ductal adenocarcinoma through single-cell RNA sequencing can guide the development of new diagnostic and therapeutic methods.

CANCERS (2022)

Article Genetics & Heredity

GeneMarkeR: A Database and User Interface for scRNA-seq Marker Genes

Brianna M. Paisley et al.

Summary: Single-cell sequencing enables researchers to study cellular heterogeneity, and accurate cell type identification is crucial for the validity of the analysis. Existing marker gene databases have limitations, restricting their applicability.

FRONTIERS IN GENETICS (2021)

Review Biochemistry & Molecular Biology

LncRNAs: Novel Biomarkers for Pancreatic Cancer

Soudeh Ghafouri-Fard et al.

Summary: Pancreatic cancer is a deadly neoplasm with poor prognosis, and recent research has highlighted the impact of lncRNAs on its progression. Some lncRNAs are oncogenic while others act as tumor suppressors in pancreatic cancer. Dysregulated expression of specific lncRNAs may serve as prognostic markers in patients with this aggressive cancer.

BIOMOLECULES (2021)

Article Medicine, Research & Experimental

Emerging roles of miRNAs in the development of pancreatic cancer

Mohadeseh Fathi et al.

Summary: Pancreatic cancer is a deadly disease with genetic aberrations and epigenetic alterations playing a role in its development. Certain miRNAs act as oncomiRs, promoting cell proliferation, while others function as tumor suppressors, regulating cell growth and cycle transitions. The use of miRNAs as non-invasive markers for diagnosing and prognosticating pancreatic cancer shows promise in research.

BIOMEDICINE & PHARMACOTHERAPY (2021)

Article Biochemistry & Molecular Biology

Integrated analysis of multimodal single-cell data

Yuhan Hao et al.

Summary: The study introduces a weighted-nearest neighbor analysis framework to learn the relative utility of each data type in each cell, enabling integrative analysis of multiple modalities. Applied to a CITE-seq dataset, the method constructs a multimodal reference atlas of the circulating immune system and successfully identifies and validates previously unreported lymphoid subpopulations.
Article Biochemistry & Molecular Biology

Genenames.org: the HGNC and VGNC resources in 2021

Susan Tweedie et al.

Summary: The HUGO Gene Nomenclature Committee assigns unique symbols and names to human genes, with over 42,000 approved gene symbols in their database. The Vertebrate Gene Nomenclature Committee assigns standardized nomenclature for vertebrate species, expanding to include species like cat, macaque, and pig.

NUCLEIC ACIDS RESEARCH (2021)

Article Biochemistry & Molecular Biology

miRDB: an online database for prediction of functional microRNA targets

Yuhao Chen et al.

NUCLEIC ACIDS RESEARCH (2020)

Review Cell Biology

Roles of circular RNAs in immune regulation and autoimmune diseases

Zheng Zhou et al.

CELL DEATH & DISEASE (2019)

Article Biochemistry & Molecular Biology

PRSS1 mutation: a possible pathomechanism of pancreatic carcinogenesis and pancreatic cancer

Qicai Liu et al.

MOLECULAR MEDICINE (2019)

Article Multidisciplinary Sciences

miRWalk: An online resource for prediction of microRNA binding sites

Carsten Sticht et al.

PLOS ONE (2018)

Review Biochemistry & Molecular Biology

On the Dependency of Cellular Protein Levels on mRNA Abundance

Yansheng Liu et al.

Review Medicine, General & Internal

Role of immune cells in pancreatic cancer from bench to clinical application An updated review

Jae Hyuck Chang et al.

MEDICINE (2016)

Article Multidisciplinary Sciences

Whole genomes redefine the mutational landscape of pancreatic cancer

Nicola Waddell et al.

NATURE (2015)

Article Gastroenterology & Hepatology

Competing endogenous RNA networks and gastric cancer

Lei-Lei Guo et al.

WORLD JOURNAL OF GASTROENTEROLOGY (2015)

Article Biochemistry & Molecular Biology

STRING v10: protein-protein interaction networks, integrated over the tree of life

Damian Szklarczyk et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Mathematical & Computational Biology

cytoHubba: identifying hub objects and sub-networks from complex interactome

Chia-Hao Chin et al.

BMC SYSTEMS BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

miRCancer: a microRNA-cancer association database constructed by text mining on literature

Boya Xie et al.

BIOINFORMATICS (2013)

Article Biochemical Research Methods

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

Weijun Luo et al.

BIOINFORMATICS (2013)

Review Genetics & Heredity

RNA-Seq: a revolutionary tool for transcriptomics

Zhong Wang et al.

NATURE REVIEWS GENETICS (2009)

Review Endocrinology & Metabolism

Endothelial cells in pancreatic islet development and function

Amaresh K. Ranjan et al.

ISLETS (2009)

Article Biochemistry & Molecular Biology

miR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sample

Soroush Sharbati-Tehrani et al.

BMC MOLECULAR BIOLOGY (2008)

Article Endocrinology & Metabolism

From Endothelial to beta Cells: Insights into Pancreatic Islet Microendothelium

Maria M. Zanone et al.

CURRENT DIABETES REVIEWS (2008)

Article Biochemistry & Molecular Biology

Meta-analysis of microarray data on pancreatic cancer defines a set of commonly dysregulated genes

R Grützmann et al.

ONCOGENE (2005)

Article Biochemistry & Molecular Biology

Cytoscape: A software environment for integrated models of biomolecular interaction networks

P Shannon et al.

GENOME RESEARCH (2003)

Article Biochemistry & Molecular Biology

KEGG: Kyoto Encyclopedia of Genes and Genomes

M Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2000)