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Related Concept Videos

RNA-seq03:21

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 microarray-based...
DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
Sanger Sequencing01:57

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...

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Related Experiment Video

Updated: Jun 25, 2026

Generation of High Quality Chromatin Immunoprecipitation DNA Template for High-throughput Sequencing (ChIP-seq)
09:52

Generation of High Quality Chromatin Immunoprecipitation DNA Template for High-throughput Sequencing (ChIP-seq)

Published on: April 19, 2013

ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions.

Dominic Schmidt1, Michael D Wilson, Christiana Spyrou

  • 1Department of Oncology, Hutchison/MRC Research Centre, Hills Road, Cambridge CB20XZ, UK.

Methods (San Diego, Calif.)
|March 12, 2009
PubMed
Summary

Chromatin immunoprecipitation sequencing (ChIP-seq) identifies protein-DNA interactions. This method combines ChIP with high-throughput sequencing to map these interactions genome-wide, providing valuable insights into gene regulation.

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Related Experiment Videos

Last Updated: Jun 25, 2026

Generation of High Quality Chromatin Immunoprecipitation DNA Template for High-throughput Sequencing (ChIP-seq)
09:52

Generation of High Quality Chromatin Immunoprecipitation DNA Template for High-throughput Sequencing (ChIP-seq)

Published on: April 19, 2013

Probing High-density Functional Protein Microarrays to Detect Protein-protein Interactions
08:07

Probing High-density Functional Protein Microarrays to Detect Protein-protein Interactions

Published on: August 2, 2015

DamID-seq: Genome-wide Mapping of Protein-DNA Interactions by High Throughput Sequencing of Adenine-methylated DNA Fragments
09:14

DamID-seq: Genome-wide Mapping of Protein-DNA Interactions by High Throughput Sequencing of Adenine-methylated DNA Fragments

Published on: January 27, 2016

Area of Science:

  • Molecular Biology
  • Genomics
  • Epigenetics

Background:

  • Chromatin immunoprecipitation (ChIP) is a technique used to isolate specific protein-DNA interactions.
  • Understanding these interactions is crucial for deciphering gene regulation and cellular function.

Purpose of the Study:

  • To describe the methodology for performing ChIP-seq starting from whole tissues or cell lines.
  • To detail the process of generating sequencing tags for genome-wide analysis of protein-DNA interactions.

Main Methods:

  • Isolation of specific protein-DNA complexes using ChIP.
  • High-throughput sequencing of the isolated DNA fragments.
  • Alignment of sequencing tags to a reference genome for mapping interactions.

Main Results:

  • Generation of millions of short sequencing tags representing protein-bound DNA regions.
  • Successful alignment of tags to the reference genome to identify interaction sites.

Conclusions:

  • ChIP-seq is an effective method for genome-wide mapping of protein-DNA interactions.
  • The described protocol enables researchers to analyze these interactions in various biological contexts.
  • Discussion of contemporary data analysis challenges provides a guide for interpretation.