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Updated: Apr 6, 2026

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing

Published on: May 23, 2018

A microfluidic device for epigenomic profiling using 100 cells.

Zhenning Cao¹, Changya Chen², Bing He²

¹Department of Biomedical Engineering and Mechanics, Virginia Tech, Blacksburg, Virginia, USA.

|July 28, 2015

Summary

This summary is machine-generated.

Chromatin immunoprecipitation (ChIP) assays are now more sensitive for low-cell epigenomic studies. New microfluidics technology enables high-quality DNA collection from just 100 cells, revealing dynamic enhancer activity in early blood development.

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Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Published on: December 10, 2014

Area of Science:

Epigenetics
Genomics
Cell Biology

Background:

Chromatin immunoprecipitation (ChIP) assays are crucial for epigenomic studies.
Low sensitivity limits ChIP applications in studies of rare or low-abundance cells.
Understanding epigenomic regulation in early development requires sensitive techniques.

Purpose of the Study:

To develop a highly sensitive ChIP-seq protocol for low-abundance cells.
To identify novel regulatory elements in hematopoietic stem and progenitor cells.
To investigate the dynamics of enhancer activity during early hematopoiesis.

Main Methods:

Development of a microfluidics-based platform for ChIP-seq.
Optimization of ChIP DNA enrichment from limited cell inputs (as few as 100 cells).
Application of the protocol to mouse fetal liver hematopoietic stem and progenitor cells.

Main Results:

Achieved drastically improved collection of high-quality ChIP-enriched DNA.
Successfully applied ChIP-seq to as few as 100 cells.
Uncovered numerous novel enhancers and super enhancers in mouse fetal liver hematopoietic stem and progenitor cells.

Conclusions:

The microfluidics-based ChIP-seq protocol significantly enhances sensitivity for epigenomic studies.
This technology enables the discovery of regulatory elements in low-abundance cell populations.
Enhancer activity is highly dynamic during early hematopoiesis, as revealed by this new method.