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" Non-coding RNAs in complex diseases : "
Xia Li, Juan Xu, Yun Xiao, Shangwei Ning, Yunpeng Zhang, editors.
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BL
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889698
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| Title & Author
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Non-coding RNAs in complex diseases : : a bioinformatics perspective /\ Xia Li, Juan Xu, Yun Xiao, Shangwei Ning, Yunpeng Zhang, editors.
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| Publication Statement
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Singapore :: Springer,, 2018.
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| Series Statement
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Advances in experimental medicine and biology,; volume 1094
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1 online resource (x, 126 pages) :: illustrations (some color)
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| ISBN
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9789811307195
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: 9789811307201
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: 9811307199
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: 9811307202
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9789811307188
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9811307180
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| Contents
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Intro; Preface; Contents; Contributors; Chapter 1: Non-coding RNA Resources; 1.1 Introduction; 1.2 ncRNA Annotation Resources; 1.2.1 miRBase; 1.2.2 NONCODE; 1.2.3 LNCipedia; 1.2.4 LNCat; 1.3 ncRNA-Associated Disease Resources; 1.3.1 HMDD; 1.3.2 miR2Disease; 1.3.3 LncRNADisease; 1.3.4 Lnc2Cancer; 1.4 ncRNA-Related Variants Resources; 1.4.1 dPORE-miRNA; 1.4.2 miRdSNP; 1.4.3 miRNASNP; 1.4.4 MirSNP; 1.4.5 PolymiRTS; 1.4.6 MicroSNiPer; 1.4.7 lncRNASNP; 1.4.8 LincSNP; 1.5 Other ncRNA Resources; 1.5.1 DIANA-LncBase; 1.5.2 ChIPBase; 1.5.3 LncRNA2Target; 1.6 Perspectives and Conclusion; References
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3.2.1 MiRNA Expression Data Sets3.2.2 Identification of Orthologous miRNAs; 3.2.3 Construction of a Conserved miRNA Co-expression Network; 3.2.4 MiRNA Genomic Location, Cluster, Family, TF, Targets and Disease Information; 3.2.5 Gene Expression Data from miRNA Knockout/Transfection Experiments; 3.2.6 Functional Enrichment Analysis; 3.3 Results; 3.3.1 Construction of a Conserved miRNA Co-expression Network; 3.3.2 Functional Relationships Between Conserved Co-expressed miRNA Pairs; 3.3.3 Dysfunction of miRNA Cooperation in Disease; 3.4 Concluding Remarks; References
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5.6 Perspectives and ConclusionReferences; 6: Profiling DNA Methylation Patterns of Non-coding RNAs (ncRNAs) in Human Disease; 6.1 Introduction; 6.2 Re-annotation of Data from the Infinium 450 k Array to Construct lncRNA Methylation Profiles; 6.2.1 Probe Mapping; 6.2.2 DNA Methylation Level Evaluating; 6.2.3 LncRNAs Methylation Profiles Constructing and Methylation Pattern Detecting; 6.3 Classifying lncRNA Methylation Patterns in Cancers; 6.3.1 A Strategy for Methylation Pattern Classifying; 6.3.2 Analysis of Repetitive Elements at lncRNA Promoters
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Chapter 2: Systematic Identification of Non-coding RNAs2.1 Introduction; 2.2 Methods; 2.2.1 Identification of miRNAs; 2.2.2 Identification of lncRNAs; 2.3 Results; 2.3.1 miRNA Transcriptome Detected by Small RNA-seq Annotation; 2.3.2 Re-annotation of Microarray for Revealing lncRNAs; 2.3.3 Summaries of lncRNA Annotation Resources; 2.3.4 Construction of miRNA and lncRNA Expression Profiles in Heart Failure (Based on miRNA-seq and RNA-seq); 2.4 Concluding Remarks; References; Chapter 3: Functional Characterization of Non-coding RNAs Through Genomic Data Fusion; 3.1 Introduction; 3.2 Methods
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Chapter 4: Genomic-Scale Prioritization of Disease-Related Non-coding RNAs4.1 Introduction; 4.2 Expression-Based Technologies; 4.3 Biological Network-Based Technologies; 4.4 Known Disease-ncRNA Association-Based Technologies; 4.5 Integrated Strategy Based Technologies; 4.6 Conclusions; References; Chapter 5: Genome-Wide Mapping of SNPs in Non-coding RNAs; 5.1 Introduction; 5.2 Mapping SNPs in Human miRNA Targets; 5.3 Mapping Disease-Associated SNPs in lncRNAs; 5.4 Identification of SNPs ́Effects on lncRNA Structure; 5.5 Mapping Disease-Associated SNPs in lncRNA TFBSs
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| Abstract
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This book offers an in-depth and comprehensive review on current understanding of regulatory ncRNAs in complex diseases from a view of bioinformatics. It conveys state-of-the-art bioinformatics tools and methods for ncRNAs from computational detection, functional prediction, to their roles in diseases. Computational methods used to investigate uncharacterised ncRNAs in diseases are mainly summarized in seven aspects: DNA variation of ncRNAs in diseases, prioritization of disease-related ncRNAs, dysregulation epigenetic factors that regulate ncRNA misexpression (DNA methylation and histone-modification), complex crosstalk across ncRNAs, ncRNAs acted as competing regulators to mediate the expression of protein-coding genes, non-coding RNAs mediated risk pathways, and their contributions to drug target predictions. The generally used data resources of ncRNAs are also listed in the end. This book provides important information on the current progress in the fast-moving fields of bioinformatics for regulatory ncRNAs. It provides a timely and useful reference for computational biologists, specifically with RNA interests, and other related areas. Prof. Xia Li is a Professor and the Dean of College of Bioinformatics Science and Technology, Harbin Medical University, China. Dr. Yun Xiao, Dr. Juan Xu, Dr. Shangwei Ning and Dr. Yunpeng Zhang are from College of Bioinformatics Science and Technology, Harbin Medical University, China.
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Genetic disorders.
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Non-coding RNA.
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Bioinformatics.
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Genetic disorders.
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Medical genetics.
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Medical-- Genetics.
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Molecular biology.
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Non-coding RNA.
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Science-- Life Sciences-- Anatomy Physiology.
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| Dewey Classification
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572.8/8
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| LC Classification
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QP623
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| Added Entry
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Li, Xia
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Ning, Shangwei
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Xiao, Yun
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Xu, Juan
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Zhang, Yunpeng
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