eBook: Single-cell Methods in Epigenetics and Genomics

Single-Cell methodologies can be the most comprehensive way to identify cell subpopulations with different transcriptome and epigenetic profiles within complex samples, eliminating the need for isolation strategies like FACS or magnetic sorting that could alter the biology due to sample manipulation. These methods are proving to be invaluable for Identifying novel cells that modulate response to drug treatments (i.e. responders vs. resistant cells), and for identifying subpopulations of cells with variations in gene expression that can provide insight into developmental trajectories such as brain development, T-helper cell development, and B-cell differentiation. In this EpiGenie ebook, we present summaries of several studies on exploring the use of single-cell methods for analysis of epigenetics, genomics research.

Table of Contents:

DNA Methylation
Single-cell Based DNA Methylation Deconvolution Method Scores Another Goal for Epigenetics
scAge – A Single-cell DNA Methylation
Clock Details Epigenetic Aging and Rejuvenation

Multiomics
Single-cell Multiomics of the Immune Response to Vaccination
Are My Eggs Getting Old? Single-cell Multiomics Shows that Oocytes Have an Epigenetic Timestamp
Paired-Tag Pairs Up ChIP-Seq and
RNA-Seq for Single-cell Multiomics

CUT&Tag
scCUT&Tag: The Cutting Edge of Single-cell Histone Modification Profiling
Cell Surface Protein Profiling Gives Single-cell CUT&Tag a Pro Upgrade
The Tn5 Transposase Takes Single-cell ChIP-Seq to the Next Level

ATAC-Seq
Perturb-ATAC: Single-cell Multiplex CRISPR Screening of Chromatin Regulatory Networks
New Single-cell CRISPR Screens “ATAC” Chromatin Accessibility
Single-cell ATAC-Seq Shows that Chromatin Remodeling Allows Immune Cells to Remember COVID-19

Hi-C and Conformational Analysis
scSPRITE Adds a Twist to Single-cell Genome Organization
Micro-C and Single-cell Hi-C Provide Macro Chromosome Conformation Insights

New & Novel Methods
EpiDamID Contains a Flood of Histone Modification Findings from Single Cells!
A Suite of New Tools to Solve Single-cell Epigenetic Enigmas