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Series GSE183032 Query DataSets for GSE183032
Status Public on Feb 14, 2022
Title CUT&Tag2for1: a modified method for simultaneous profiling of the accessible and silenced regulome in single cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Cleavage Under Targets & Tagmentation (CUT&Tag) is an antibody-directed transposase-tethering chromatin profiling strategy for small samples and single cells. Previously, we showed that activation of tethered Tn5 transposase under low-salt conditions using antibodies that target promoters and enhancers produces high-resolution genome-wide chromatin accessibility maps. Here we show that low-salt CUT&Tag using a mixture of an antibody to the initiation form of RNA Polymerase II (Pol2 Serine-5 phosphate) and an antibody to repressive Polycomb domains (H3K27me3) followed by computational signal deconvolution produces efficient high-resolution maps of both the active and repressive regulomes. We have extended this CUT&Tag2for1 method to single cells using a novel deconvolution approach, thus producing high-quality multifactorial single-cell chromatin maps with a workflow that is identical to that for standard single-cell CUT&Tag. The ability to seamlessly map both the active and repressive regulatory elements in single cells provides a complete regulome profiling strategy suitable for high-throughput single-cell platforms.
 
Overall design We used Cleavage under targets and Tagmentation (Cut-and-Tag), a chromatin profiling strategy in which antibody-targeted controlled integration of DNA sequencing adapters produces libraries for paired-end DNA sequencing.
 
Contributor(s) Janssens DH, Otto D, Meers MP, Setty M, Ahmad K, Henikoff S
Citation(s) 35300717
Submission date Aug 30, 2021
Last update date May 16, 2022
Contact name Jorja Henikoff
E-mail(s) jorja@fhcrc.org
Phone 206-667-4850
Organization name Fred Hutchinson Cancer Research Center
Department Basic Sciences
Lab Henikoff
Street address 1100 Fairview AV N, A1-162
City Seattle
State/province WA
ZIP/Postal code 98109-1024
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (55)
GSM5549907 H1_K27_CUTAC_hex_(20210318+0323_SH_Hs_H1x_K27mh_0315)
GSM5549908 H1_K27_CUTAC_linamp_hex_(20210318+0323_SH_Hs_H1x_K27mh_lin_0315)
GSM5549909 H1_K27_CUTAC_linamp_(20210318+0323_SH_Hs_H1x_K27m_lin_0315)
Relations
BioProject PRJNA758900
SRA SRP334710

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE183032_CUTnTag-direct_v3_Protocols.io.pdf 2.5 Mb (ftp)(http) PDF
GSE183032_RAW.tar 2.2 Gb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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