Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis
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K. Vijay-Shanker | Raja Mazumder | Yu Hu | Samir Gupta | Robel Kahsay | Hayley Dingerdissen | Quan Wan | Cheng Yan
[1] H. Kim,et al. Fibroblast Growth Factors: Biology, Function, and Application for Tissue Regeneration , 2010, Journal of tissue engineering.
[2] C. Pérez-Plasencia,et al. MicroRNAs are involved in cervical cancer development, progression, clinical outcome and improvement treatment response (Review). , 2016, Oncology reports.
[3] Di Wu,et al. miRCancer: a microRNA-cancer association database constructed by text mining on literature , 2013, Bioinform..
[4] K. Yanaga,et al. MicroRNA-301b promotes cell invasiveness through targeting TP63 in pancreatic carcinoma cells. , 2014, International journal of oncology.
[5] R. Ma,et al. Identification of microRNA biomarkers in the blood of breast cancer patients based on microRNA profiling. , 2017, Gene.
[6] Xiangxiang Zeng,et al. Integrative approaches for predicting microRNA function and prioritizing disease-related microRNA using biological interaction networks , 2016, Briefings Bioinform..
[7] Chromosomal Instability and Phosphoinositide Pathway Gene Signatures in Glioblastoma Multiforme , 2014, Molecular Neurobiology.
[8] Robin L. Jones,et al. Cyclin D1 protein overexpression and CCND1 amplification in breast carcinomas: an immunohistochemical and chromogenic in situ hybridisation analysis , 2006, Modern Pathology.
[9] H. Dweep,et al. miRWalk2.0: a comprehensive atlas of microRNA-target interactions , 2015, Nature Methods.
[10] Peng Qiu,et al. TCGA-Assembler: open-source software for retrieving and processing TCGA data , 2014, Nature Methods.
[11] W. M. Leevy,et al. RIPK1-mediated induction of mitophagy compromises the viability of extracellular-matrix-detached cells , 2018, Nature Cell Biology.
[12] Yang Zhao,et al. A Systematic Evaluation of Feature Selection and Classification Algorithms Using Simulated and Real miRNA Sequencing Data , 2015, Comput. Math. Methods Medicine.
[13] Wei Wang,et al. MicroRNAs in breast cancer: oncogene and tumor suppressors with clinical potential , 2015, Journal of Zhejiang University-SCIENCE B.
[14] Wen Gao,et al. The expression of heparanase and microRNA-1258 in human non-small cell lung cancer , 2012, Tumor Biology.
[15] Yi-ran Huang,et al. Dysregulation and functional roles of miR-183-96-182 cluster in cancer cell proliferation, invasion and metastasis , 2016, Oncotarget.
[16] R. Weinberg,et al. Tumour invasion and metastasis initiated by microRNA-10b in breast cancer , 2007, Nature.
[17] Tongbin Li,et al. miRecords: an integrated resource for microRNA–target interactions , 2008, Nucleic Acids Res..
[18] James B. Shealy,et al. miR-1269 Promotes Metastasis and Forms a Positive Feedback Loop with TGF-β , 2015, Nature Communications.
[19] Wei Tang,et al. Tumor origin detection with tissue‐specific miRNA and DNA methylation markers , 2018, Bioinform..
[20] María Martín,et al. UniProt: A hub for protein information , 2015 .
[21] G. Calin,et al. MicroRNAs in cancer therapeutics: “from the bench to the bedside” , 2015, Expert opinion on biological therapy.
[22] Zhonglu Ren,et al. Identifying molecular subtypes in human colon cancer using gene expression and DNA methylation microarray data , 2015, International journal of oncology.
[23] Yifan Peng,et al. miRTex: A Text Mining System for miRNA-Gene Relation Extraction , 2015, PLoS Comput. Biol..
[24] Mingming Jia,et al. COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer , 2010, Nucleic Acids Res..
[25] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[26] J. Baselga. Targeting the phosphoinositide-3 (PI3) kinase pathway in breast cancer. , 2011, The oncologist.
[27] Cathy H. Wu,et al. DEXTER: Disease-Expression Relation Extraction from Text , 2018, Database J. Biol. Databases Curation.
[28] Q. Zou,et al. Prediction of MicroRNA-Disease Associations Based on Social Network Analysis Methods , 2015, BioMed research international.
[29] A. Lánczky,et al. miRpower: a web-tool to validate survival-associated miRNAs utilizing expression data from 2178 breast cancer patients , 2016, Breast Cancer Research and Treatment.
[30] Yang Li,et al. HMDD v2.0: a database for experimentally supported human microRNA and disease associations , 2013, Nucleic Acids Res..
[31] Gang Fu,et al. Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data , 2014, Nucleic Acids Res..
[32] S. Baker,et al. PTEN and the PI3-kinase pathway in cancer. , 2009, Annual review of pathology.
[33] H. Ling,et al. MicroRNAs: Clinical Relevance in Colorectal Cancer , 2015, International journal of molecular sciences.
[34] F. Baas,et al. Next-generation sequencing of microRNAs in primary human polarized macrophages , 2014, Genomics data.
[35] W. Huber,et al. which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets , 2011 .
[36] K. Sakaguchi,et al. Novel inhibitors targeting PPM1D phosphatase potently suppress cancer cell proliferation. , 2015, Bioorganic & medicinal chemistry.
[37] C. Croce,et al. Frequent deletions and down-regulation of micro- RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic leukemia , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[38] E. Hovig,et al. A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome. , 2015, Annual review of genetics.
[39] Nicolas Servant,et al. A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis , 2013, Briefings Bioinform..
[40] Z. Zhao,et al. Identification of differentially expressed miRNAs in individual breast cancer patient and application in personalized medicine , 2016, Oncogenesis.
[41] Andrew H. Beck,et al. Reproductive risk factors in relation to molecular subtypes of breast cancer: Results from the nurses' health studies , 2016, International journal of cancer.
[42] S. Rajagopalan,et al. Alpha-lipoic acid activates eNOS through activation of PI3-kinase/Akt signaling pathway. , 2015, Vascular pharmacology.
[43] L. Tutar,et al. Therapeutic Targeting of microRNAs in Cancer: Future Perspectives , 2015, Drug development research.
[44] J. Padmanabhan,et al. Inhibition of Amyloid Precursor Protein Processing Enhances Gemcitabine-mediated Cytotoxicity in Pancreatic Cancer Cells* , 2013, The Journal of Biological Chemistry.
[45] Sudhir Srivastava,et al. Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis , 2015, Database J. Biol. Databases Curation.
[46] H. Aydin,et al. Effects of Ganoderma lucidum (Higher Basidiomycetes) Extracts on the miRNA Profile and Telomerase Activity of the MCF-7 Breast Cancer Cell Line. , 2015, International journal of medicinal mushrooms.
[47] Hua Tan,et al. Pan-cancer analysis on microRNA-associated gene activation , 2019, EBioMedicine.
[48] Nectarios Koziris,et al. TarBase 6.0: capturing the exponential growth of miRNA targets with experimental support , 2011, Nucleic Acids Res..
[49] J. Zempleni,et al. Gene regulation by dietary microRNAs. , 2015, Canadian journal of physiology and pharmacology.
[50] Y. Yatabe,et al. Reduced Expression of the let-7 MicroRNAs in Human Lung Cancers in Association with Shortened Postoperative Survival , 2004, Cancer Research.
[51] H. Werner,et al. Transcriptional and epigenetic control of IGF1R gene expression: implications in metabolism and cancer. , 2014, Growth hormone & IGF research : official journal of the Growth Hormone Research Society and the International IGF Research Society.
[52] K. Kosik,et al. MicroRNA-21 is an antiapoptotic factor in human glioblastoma cells. , 2005, Cancer research.
[53] Juancarlos Chan,et al. Gene Ontology Consortium: going forward , 2014, Nucleic Acids Res..
[54] Q. Zou,et al. Similarity computation strategies in the microRNA-disease network: a survey. , 2015, Briefings in functional genomics.
[55] Anushya Muruganujan,et al. PANTHER version 10: expanded protein families and functions, and analysis tools , 2015, Nucleic Acids Res..
[56] S. Lawler,et al. MicroRNAs in cancer: biomarkers, functions and therapy. , 2014, Trends in molecular medicine.
[57] Jincai Wang,et al. The expression and clinical significance of microRNA-1258 and heparanase in human breast cancer. , 2013, Clinical biochemistry.
[58] T. Hubbard,et al. A census of human cancer genes , 2004, Nature Reviews Cancer.
[59] Lucila Ohno-Machado,et al. miRIAD—integrating microRNA inter- and intragenic data , 2014, Database J. Biol. Databases Curation.
[60] A. Camargo,et al. Overexpression of miR-21-5p as a predictive marker for complete tumor regression to neoadjuvant chemoradiotherapy in rectal cancer patients , 2014, BMC Medical Genomics.
[61] Xin Huang,et al. Exploration of prognosis-related microRNA and transcription factor co-regulatory networks across cancer types , 2019, RNA biology.
[62] Ana Kozomara,et al. miRBase: annotating high confidence microRNAs using deep sequencing data , 2013, Nucleic Acids Res..
[63] S. Sethi,et al. MicroRNAs in personalized cancer therapy , 2014, Clinical genetics.
[64] C. Sander,et al. Analysis of microRNA-target interactions across diverse cancer types , 2013, Nature Structural &Molecular Biology.
[65] Yadong Wang,et al. miR2Disease: a manually curated database for microRNA deregulation in human disease , 2008, Nucleic Acids Res..
[66] John D. McPherson,et al. Optimization of miRNA-seq data preprocessing , 2015, Briefings Bioinform..
[67] Davide Heller,et al. STRING v10: protein–protein interaction networks, integrated over the tree of life , 2014, Nucleic Acids Res..
[68] Xiaohong Liu,et al. Defective expression of transforming growth factor beta type II receptor (TGFBR2) in the large cell variant of non-small cell lung carcinoma. , 2007, Lung cancer.
[69] H. Dvorak,et al. Why are tumour blood vessels abnormal and why is it important to know? , 2009, British Journal of Cancer.
[70] Hsien-Da Huang,et al. miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database , 2015, Nucleic Acids Res..
[71] J. Frasor,et al. Correlative Analysis of miRNA Expression and Oncotype Dx Recurrence Score in Estrogen Receptor Positive Breast Carcinomas , 2015, PloS one.
[72] Å. Borg,et al. Identification of new microRNAs in paired normal and tumor breast tissue suggests a dual role for the ERBB2/Her2 gene. , 2011, Cancer research.
[73] P. Sharp,et al. Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements. , 2015, Cell reports.
[74] A. Chella,et al. microRNA classifiers are powerful diagnostic/prognostic tools in ALK-, EGFR-, and KRAS-driven lung cancers , 2015, Proceedings of the National Academy of Sciences.
[75] Xinyi Dai,et al. Identification and Validation of an Immune-Related RNA Signature to Predict Survival of Patients With Head and Neck Squamous Cell Carcinoma , 2019, Front. Genet..
[76] D. Humphreys,et al. miRspring: a compact standalone research tool for analyzing miRNA-seq data , 2013, Nucleic acids research.
[77] Mohammad Aslam Khan,et al. Insights into the Role of microRNAs in Pancreatic Cancer Pathogenesis: Potential for Diagnosis, Prognosis, and Therapy. , 2015, Advances in experimental medicine and biology.
[78] Juliane C. Dohm,et al. Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems , 2011, Genome Biology.
[79] Mark D. Robinson,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[80] Chiun-Sheng Huang,et al. Deregulated microRNAs in triple-negative breast cancer revealed by deep sequencing , 2015, Molecular Cancer.
[81] W. Tembe,et al. Comparison of Analysis Tools for miRNA High Throughput Sequencing Using Nerve Crush as a Model , 2013, Front. Genet..
[82] Caiwen Ou,et al. MiR-503 inhibited cell proliferation of human breast cancer cells by suppressing CCND1 expression , 2015, Tumor Biology.
[83] Shou-Ching Tang,et al. miR-367 stimulates Wnt cascade activation through degrading FBXW7 in NSCLC stem cells , 2017, Cell cycle.
[84] Xiangxiang Zeng,et al. Inferring MicroRNA-Disease Associations by Random Walk on a Heterogeneous Network with Multiple Data Sources , 2017, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[85] H. Horvitz,et al. MicroRNA expression profiles classify human cancers , 2005, Nature.
[86] Jianping Shi,et al. A single nucleotide variant in microRNA-1269a promotes the occurrence and process of hepatocellular carcinoma by targeting to oncogenes SPATS2L and LRP6. , 2017, Bulletin du cancer.
[87] Marie-Agnès Dillies,et al. SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data , 2015, bioRxiv.