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

Erik Serrao; Peter Cherepanov; Alan N. Engelman

doi:10.3791/53840

Journal

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Biologie

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Amplification, Next-Generation-Sequenzierung und genomischer DNA Mapping von Retrovirale Integration Seiten

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

JoVE Journal
Biologie

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JoVE Journal Biologie

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

Amplification, Next-Generation-Sequenzierung und genomischer DNA Mapping von Retrovirale Integration Seiten

Please note that all translations are automatically generated. Click here for the English version.

17,513 Views

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09:31 min

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March 22, 2016

DOI:

10.3791/53840-v

DOI:

10.3791/53840-v

•

09:31 min

March 22, 2016

•

3 Views

Erik Serrao¹, Peter Cherepanov², Alan N. Engelman¹

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

Transkript

Summary

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.