JoVE Logo
Faculty Resource Center

Sign In

Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites

DOI :

10.3791/53840-v

March 22nd, 2016

March 22nd, 2016

17,109 Views

1Department of Cancer Immunology and AIDS, Dana-Farber Cancer Institute, 2Chromatin Structure and Mobile DNA, The Francis Crick Institute

We describe a protocol for amplifying retroviral integration sites from the genomic DNA of infected cells, sequencing the amplified virus-host junctions, and then mapping these sequences to a reference genome. We also describe techniques to quantify the distribution of integration sites relative to various genomic annotations using BEDTools.

Tags

Amplification

-- Views

Related Videos

article

Isolation of Genomic DNA from Mouse Tails

article

Competitive Genomic Screens of Barcoded Yeast Libraries

article

Fluorescence-microscopy Screening and Next-generation Sequencing: Useful Tools for the Identification of Genes Involved in Organelle Integrity

article

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

article

Targeted DNA Methylation Analysis by Next-generation Sequencing

article

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

article

Interactome-Seq: A Protocol for Domainome Library Construction, Validation and Selection by Phage Display and Next Generation Sequencing

article

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing

article

Microbiota Analysis Using Two-step PCR and Next-generation 16S rRNA Gene Sequencing

article

A Magnetic-Bead-Based Mosquito DNA Extraction Protocol for Next-Generation Sequencing

JoVE Logo

Privacy

Terms of Use

Policies

Research

Education

ABOUT JoVE

Copyright © 2024 MyJoVE Corporation. All rights reserved