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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Updated: Nov 13, 2025

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

An optimized protocol for rapid, sensitive and robust on-bead ChIP-seq from primary cells.

Lorane Texari¹, Nathanael J Spann², Ty D Troutman¹

¹Department of Medicine, University of California, San Diego, La Jolla, CA 92093, USA.

|March 15, 2021

Summary

This summary is machine-generated.

This study presents a validated ChIP-seq protocol for generating high-quality sequencing data from low-abundance cells. The method uses small volumes and single-pot on-bead library preparation for efficient analysis of transcription factor binding.

Keywords:

ChIP-seq Genomics Molecular biology Sequencing

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A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

A Combinatorial Single-cell Approach to Characterize the Molecular and Immunophenotypic Heterogeneity of Human Stem and Progenitor Populations

Published on: October 25, 2018

Area of Science:

Molecular Biology
Genomics
Epigenetics

Background:

Understanding disease mechanisms requires integrative analysis of next-generation sequencing data.
Chromatin immunoprecipitation sequencing (ChIP-seq) identifies transcription regulator binding sites.
Low cell numbers from primary tissues pose a significant challenge for ChIP-seq assays.

Purpose of the Study:

To present a validated ChIP-seq protocol optimized for low-abundance cells.
To enable high-quality ChIP-seq data generation from limited starting material.
To facilitate medium-to-high-throughput ChIP-seq applications in various mammalian cells.

Main Methods:

Utilizes small reaction volumes.
Employs single-pot on-bead library preparation.
Extensively validated protocol for ChIP-seq.

Main Results:

Generates diverse, high-quality ChIP-seq data.
Successfully adapted for low-abundance primary cells.
Applicable to a range of mammalian cell types.

Conclusions:

The presented ChIP-seq protocol overcomes cell number limitations.
Enables robust transcription factor binding analysis in challenging samples.
Offers a versatile tool for genomic and epigenomic research.