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Method Article
Heng Zhu
Johns Hopkins University School of Medicine
Corresponding Author
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Identifying readers of epigenetic marks on DNA is a critical step towards understanding the mechanisms of those modifications in many biological processes. Here, we present an all-to-all approach, dubbed digital affinity profiling via proximity ligation (DAPPL), to simultaneously profile readers for different epigenetic modifications (i.e., 5-methylcytosine, 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine) on CpG dinucleotides using random DNA libraries. Using specific DNA fragments to covalently barcode each human TFs and co-factors, we could connect the identity of a protein to its captured DNA fragments via proximity ligation in a highly multiplexed. Using this approach, we identified numerous readers for different DNA epigenetic modifications
Keywords
Epigenetic marks, Transcription factor, DNA modification, Methylcytosine, Hydroxymethylcytosine, Formylcytosine, Carboxylcytosine
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Posted 26 May, 2021
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Associated Publications
An all-to-all approach to the identification of sequence-specific readers for epigenetic DNA modifications on cytosine
by Guang Song, Guohua Wang, Ximei Luo, +8
Nature Communications (04 February, 2021)
An open repository of community-contributed protocols sponsored by Nature Research.
Learn more about Protocol Exchange
Method Article
Heng Zhu
Johns Hopkins University School of Medicine
Corresponding Author
Version History
CURRENT STATUS: Posted
Version 1
Posted 26 May, 2021
No community comments so far
Metrics
Comments: 0
HTML Views: ...
Subject Areas
Biotechnology
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Identifying readers of epigenetic marks on DNA is a critical step towards understanding the mechanisms of those modifications in many biological processes. Here, we present an all-to-all approach, dubbed digital affinity profiling via proximity ligation (DAPPL), to simultaneously profile readers for different epigenetic modifications (i.e., 5-methylcytosine, 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine) on CpG dinucleotides using random DNA libraries. Using specific DNA fragments to covalently barcode each human TFs and co-factors, we could connect the identity of a protein to its captured DNA fragments via proximity ligation in a highly multiplexed. Using this approach, we identified numerous readers for different DNA epigenetic modifications
This is a list of supplementary files associated with this preprint. Click to download.
Loading...
Associated Publications
An all-to-all approach to the identification of sequence-specific readers for epigenetic DNA modifications on cytosine
by Guang Song, Guohua Wang, Ximei Luo, +8
Nature Communications (04 February, 2021)