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.

[1]  S. Graziano,et al.  Single Cell RNA Sequencing: A New Frontier in Pancreatic Ductal Adenocarcinoma , 2022, Cancers.

[2]  A. Sayad,et al.  The role of circular RNAs in pancreatic cancer: new players in tumorigenesis and potential biomarkers. , 2022, Pathology, research and practice.

[3]  P. Dong,et al.  LncRNAs: Novel Biomarkers for Pancreatic Cancer , 2021, Biomolecules.

[4]  Brianna M. Paisley,et al.  GeneMarkeR: A Database and User Interface for scRNA-seq Marker Genes , 2021, Frontiers in Genetics.

[5]  M. Taheri,et al.  Emerging roles of miRNAs in the development of pancreatic cancer. , 2021, Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie.

[6]  Xiaochen Bo,et al.  clusterProfiler 4.0: A universal enrichment tool for interpreting omics data , 2021, Innovation.

[7]  Susan Tweedie,et al.  Genenames.org: the HGNC and VGNC resources in 2021 , 2020, Nucleic Acids Res..

[8]  Raphael Gottardo,et al.  Integrated analysis of multimodal single-cell data , 2020, Cell.

[9]  Fei Wang,et al.  miRTarBase 2020: updates to the experimentally validated microRNA–target interaction database , 2019, Nucleic Acids Res..

[10]  F. Gao,et al.  PRSS1 mutation: a possible pathomechanism of pancreatic carcinogenesis and pancreatic cancer , 2019, Molecular Medicine.

[11]  Xiaowei Wang,et al.  miRDB: an online database for prediction of functional microRNA targets , 2019, Nucleic Acids Res..

[12]  Bao Sun,et al.  Roles of circular RNAs in immune regulation and autoimmune diseases , 2019, Cell Death & Disease.

[13]  Jiuwei Chen,et al.  Identification of RNA Expression Profiles in Thyroid Cancer to Construct a Competing Endogenous RNA (ceRNA) Network of mRNAs, Long Noncoding RNAs (lncRNAs), and microRNAs (miRNAs) , 2019, Medical science monitor : international medical journal of experimental and clinical research.

[14]  A. Butte,et al.  Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage , 2018, Nature Immunology.

[15]  Hongbo Wang,et al.  LncRNA SNHG5 affects cell proliferation, metastasis and migration of colorectal cancer through regulating miR-132-3p/CREB5 , 2018, Cancer biology & therapy.

[16]  Carsten Sticht,et al.  miRWalk: An online resource for prediction of microRNA binding sites , 2018, PloS one.

[17]  Xia Xue,et al.  MiR-221 inhibits proliferation of pancreatic cancer cells via down regulation of SOCS3. , 2018, European review for medical and pharmacological sciences.

[18]  S. Quake,et al.  Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Patterns , 2017, Cell.

[19]  Chad J. Creighton,et al.  UALCAN: A Portal for Facilitating Tumor Subgroup Gene Expression and Survival Analyses , 2017, Neoplasia.

[20]  Huamin Wang,et al.  RNA sequencing analyses reveal novel differentially expressed genes and pathways in pancreatic cancer , 2017, Oncotarget.

[21]  Yong-jian Jiang,et al.  Role of immune cells in pancreatic cancer from bench to clinical application , 2016, Medicine.

[22]  R. Aebersold,et al.  On the Dependency of Cellular Protein Levels on mRNA Abundance , 2016, Cell.

[23]  L. Dai,et al.  Competing endogenous RNA networks and gastric cancer. , 2015, World journal of gastroenterology.

[24]  D. Bartel,et al.  Predicting effective microRNA target sites in mammalian mRNAs , 2015, eLife.

[25]  J. Kench,et al.  Whole genomes redefine the mutational landscape of pancreatic cancer , 2015, Nature.

[26]  Chung-Yen Lin,et al.  cytoHubba: identifying hub objects and sub-networks from complex interactome , 2014, BMC Systems Biology.

[27]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[28]  Davide Heller,et al.  STRING v10: protein–protein interaction networks, integrated over the tree of life , 2014, Nucleic Acids Res..

[29]  J. Powell,et al.  An integrated transcriptome and epigenome analysis identifies a novel candidate gene for pancreatic cancer , 2013, BMC Medical Genomics.

[30]  Weijun Luo,et al.  Pathview: an R/Bioconductor package for pathway-based data integration and visualization , 2013, Bioinform..

[31]  Di Wu,et al.  miRCancer: a microRNA-cancer association database constructed by text mining on literature , 2013, Bioinform..

[32]  Sridhar Ramaswamy,et al.  RNA sequencing of pancreatic circulating tumour cells implicates WNT signaling in metastasis , 2012, Nature.

[33]  Sheng Zhang,et al.  PRSS1 intron mutations in patients with pancreatic cancer and chronic pancreatitis. , 2011, Molecular medicine reports.

[34]  M. Joglekar,et al.  Endothelial cells in pancreatic islet development and function , 2009, Islets.

[35]  R. Einspanier,et al.  miR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sample , 2008, BMC Molecular Biology.

[36]  G. Camussi,et al.  From Endothelial to β Cells: Insights into Pancreatic Islet Microendothelium , 2008 .

[37]  Christian Pilarsky,et al.  Meta-analysis of microarray data on pancreatic cancer defines a set of commonly dysregulated genes , 2005, Oncogene.

[38]  P. Shannon,et al.  Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks , 2003 .

[39]  E. Diamandis,et al.  Pancreatic cancer. , 2013, Clinical chemistry.

[40]  M. Gerstein,et al.  RNA-Seq: a revolutionary tool for transcriptomics , 2009, Nature Reviews Genetics.

[41]  Susumu Goto,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 2000, Nucleic Acids Res..