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  Robust detection of chromosomal interactions from small numbers of cells using low-input Capture-C

Oudelaar, A. M., Davies, J. O. J., Downes, D. J., Higgs, D. R., & Hughes, J. R. (2017). Robust detection of chromosomal interactions from small numbers of cells using low-input Capture-C. Nuceic Acids Research, 45(22): e184. doi:10.1093/nar/gkx1194.

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3263358.pdf (Publisher version), 2MB
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 Creators:
Oudelaar, A. M.1, Author           
Davies, J. O. J., Author
Downes, D. J., Author
Higgs, D. R., Author
Hughes, J. R., Author
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1Lise Meitner Group Genome Organization and Regulation, MPI for Biophysical Chemistry, Max Planck Society, ou_3261271              

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Free keywords: Chromatin, Epigenetics
 Abstract: Chromosome conformation capture (3C) techniques are crucial to understanding tissue-specific regulation of gene expression, but current methods generally require large numbers of cells. This hampers the investigation of chromatin architecture in rare cell populations. We present a new low-input Capture-C approach that can generate high-quality 3C interaction profiles from 10 000–20 000 cells, depending on the resolution used for analysis. We also present a PCR-free, sequencing-free 3C technique based on NanoString technology called C-String. By comparing C-String and Capture-C interaction profiles we show that the latter are not skewed by PCR amplification. Furthermore, we demonstrate that chromatin interactions detected by Capture-C do not depend on the degree of cross-linking by performing experiments with varying formaldehyde concentrations.

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Language(s): eng - English
 Dates: 2017-11-232017-12-15
 Publication Status: Published in print
 Pages: -
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 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.1093/nar/gkx1194
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Title: Nuceic Acids Research
Source Genre: Journal
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Pages: 9 Volume / Issue: 45 (22) Sequence Number: e184 Start / End Page: - Identifier: -