G4-ChIP Track Settings

JavaScript is disabled in your web browser

You must have JavaScript enabled in your web browser to use the Genome Browser

G4-ChIP (All R-loopBase Data tracks)

Maximum display mode: Reset to defaults

Select data type (Help):

Coverage ▾

Peak ▾

Select subtracks by cell line and technology:

All	*Cell Line*	E14	mECS	mES
*Technology*
G4ChIP
G4-CUT&RUN
G4-CUT&Tag

Select subtracks further by: (select multiple categories and items - help)

Replicate:

List subtracks: only selected/visible all ()

	Cell Line^↓1	Technology^↓2	Replicate^↓3	Track Name^↓4
hide Configure	E14	G4-CUT&RUN	1	bigwig_E14_G4_CUTRUN_1	Schema
hide Configure	E14	G4-CUT&RUN	2	bigwig_E14_G4_CUTRUN_2	Schema
hide Configure	mES	G4-CUT&Tag	1	bigwig_mES_G4_CUTTag_1	Schema
hide Configure	mES	G4-CUT&Tag	2	bigwig_mES_G4_CUTTag_2	Schema
hide Configure	mES	G4-CUT&Tag	3	bigwig_mES_G4_CUTTag_3	Schema
hide Configure	mECS	G4ChIP	1	bigwig_mESC_G4_ChIP_1	Schema
hide Configure	mECS	G4ChIP	1	bigbed_mESC_G4-ChIP_2	Schema
hide Configure	mECS	G4ChIP	1	bigbed_mESC_G4-ChIP_1	Schema
hide Configure	mECS	G4ChIP	2	bigwig_mESC_G4_ChIP_2	Schema

Description

We integrates multiple G4 sequencing datasets and uploaded them to G4-ChIP. Because R-loop formation displaces the non-template DNA strand as single-stranded DNA and R-loop regions frequently exhibit positive GC skew, the exposed guanine-rich single strand is prone to fold into G-quadruplex (G4) structures. Consequently, R-loops and G4s show a certain degree of colocalization. This track serves as one of the genomic features for assessing the reliability of R-loop formation. Genomic coordinates were lifted to mm39 assembly using LiftOver.

Reference

Tsai RX, Fang KC, Yang PC et al, TERRA regulates DNA G-quadruplex formation and ATRX recruitment to chromatin. Nucleic Acids Res. 2022 Nov 28;50(21):12217-12234. PMID: 36440760

Lyu J, Shao R, Kwong Yung PY et al, Genome-wide mapping of G-quadruplex structures with CUT&Tag. Nucleic Acids Res. 2022 Feb 22;50(3):e13. PMID: 34792172

ZWulfridge P, Yan Q, Rell N et al, G-quadruplexes associated with R-loops promote CTCF binding. Mol Cell. 2023 Sep 7;83(17):3064-3079.e5. PMID: 37552993