mNET-seq on COMPASS-degron cells

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UID: 10925

Author(s): Wang, Hua* * MSK affiliated

Description: Summary from GEO:

"We measured the the dwell time of existed paused RNAPII at the promoter by mammalian native elongating transcript sequencing (mNET-seq). We found a median RNAPII half-life of 5.3 min at protein-coding genes in DMSO pre-treated control mESCs, whereas the RNAPII half-life at these genes significantly slowdown to 8.96 min when pre-treated with Auxin in the DPY30-mAID degron cell. The data suggested that loss H3K4me3 directly slows down the release of paused RNAPII throughout genes."

Overall design from GEO:

"To directly investigate the temporal stability and half-life of promoter RNAPII, we used Triptolide, a potent inhibitor of transcription initiation, coupled with mammalian native elongating transcript sequencing (mNET-seq) to measure the dwell time of existed paused RNAPII at the promoter. Unlike previous measurements, the single-nucleotide resolution of the mNET-seq data allowed us to specifically direct measure the RNAPII engaged RNA signal at protomer-proximal region."

Subject of Study

Subject(s)

Access via GEO

Accession #: GSE181686

Access via BioProject

Accession #: PRJNA753050

Access via SRA

Accession #: SRP331638
Access Restrictions: Free to All
Access Instructions: The NCBI Gene Expression Omnibus, BioProject, and SRA databases provide open access to these files.
Associated Publications: Wang H, Fan Z, Shliaha P, Miele M, Hendrickson R, Jiang X, Helin K. H3K4me3 regulates RNA polymerase II promoter-proximal pause-release. Nature. 2023; 615(7951):339-348.
Equipment Used: Illumina NextSeq 550
Sequencing and array capabilities for transcriptome, targeted resequencing and genotype sequencing
Dataset Format(s): TAR, BW
Dataset Size: 1.7 GB

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