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CpG Islands

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Cover of 'CpG Islands'

Table of Contents

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    Book Overview
  2. Altmetric Badge
    Chapter 1 CpG Islands: A Historical Perspective
  3. Altmetric Badge
    Chapter 2 Biochemical Identification of Nonmethylated DNA by BioCAP-Seq
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    Chapter 3 Prediction of CpG Islands as an Intrinsic Clustering Property Found in Many Eukaryotic DNA Sequences and Its Relation to DNA Methylation
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    Chapter 4 CpG Islands in Cancer: Heads, Tails, and Sides
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    Chapter 5 Infinium DNA Methylation Microarrays on Formalin-Fixed, Paraffin-Embedded Samples
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    Chapter 6 The Use of Methylation-Sensitive Multiplex Ligation-Dependent Probe Amplification for Quantification of Imprinted Methylation
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    Chapter 7 The Pancancer DNA Methylation Trackhub: A Window to The Cancer Genome Atlas Epigenomics Data
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    Chapter 8 Methylation-Sensitive Amplification Length Polymorphism (MS-AFLP) Microarrays for Epigenetic Analysis of Human Genomes
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    Chapter 9 Genome-Wide Profiling of DNA Methyltransferases in Mammalian Cells
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    Chapter 10 Experimental Design and Bioinformatic Analysis of DNA Methylation Data
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    Chapter 11 Assay for Transposase Accessible Chromatin (ATAC-Seq) to Chart the Open Chromatin Landscape of Human Pancreatic Islets
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    Chapter 12 Defining Regulatory Elements in the Human Genome Using Nucleosome Occupancy and Methylome Sequencing (NOMe-Seq)
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    Chapter 13 Genome-Wide Mapping of Protein–DNA Interactions on Nascent Chromatin
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    Chapter 14 Analysis of Chromatin Interactions Mediated by Specific Architectural Proteins in Drosophila Cells
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    Chapter 15 High-Throughput Single-Cell RNA Sequencing and Data Analysis
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    Chapter 16 Functional Insulator Scanning of CpG Islands to Identify Regulatory Regions of Promoters Using CRISPR
  18. Altmetric Badge
    Chapter 17 An Application-Directed, Versatile DNA FISH Platform for Research and Diagnostics
Attention for Chapter 10: Experimental Design and Bioinformatic Analysis of DNA Methylation Data
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Chapter title
Experimental Design and Bioinformatic Analysis of DNA Methylation Data
Chapter number 10
Book title
CpG Islands
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7768-0_10
Pubmed ID
Book ISBNs
978-1-4939-7767-3, 978-1-4939-7768-0
Authors

Yulia Medvedeva, Alexander Shershebnev

Abstract

DNA methylation is a crucial regulatory mechanism of gene expression, affected in many human pathologies. Therefore, it is not surprising that nowadays, in the era of high-throughput methods, a lot of data sets representing DNA methylation in various conditions are available and the amount of such data keeps growing. In this chapter, we discuss those aspects of experiment planning and data analysis, which we consider the most important for reliability and reproducibility of DNA methylation studies: usage of replicates, data quality control at various stages, selection of a statistical model, and incorporation of DNA methylation into the multi-omics analysis.

Twitter Demographics

The data shown below were collected from the profile of 1 tweeter who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 14 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 14 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 2 14%
Student > Bachelor 2 14%
Professor 1 7%
Student > Ph. D. Student 1 7%
Student > Doctoral Student 1 7%
Other 0 0%
Unknown 7 50%
Readers by discipline Count As %
Agricultural and Biological Sciences 5 36%
Biochemistry, Genetics and Molecular Biology 1 7%
Medicine and Dentistry 1 7%
Unknown 7 50%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 30 October 2019.
All research outputs
#12,795,235
of 16,110,448 outputs
Outputs from Methods in molecular biology
#4,784
of 9,330 outputs
Outputs of similar age
#211,688
of 281,687 outputs
Outputs of similar age from Methods in molecular biology
#6
of 7 outputs
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