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SRX17132127: GSM6475138: CT26 Phf8 KO2_H3K9me2; Mus musculus; ChIP-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 23.5M spots, 7G bases, 2.2Gb downloads

External Id: GSM6475138_r1
Submitted by: School of Life Sciences, East China Normal University
Study: PHF8 enables immune evasion by silencing endogenous retroelements [CHIP-seq]
show Abstracthide Abstract
Immunotherapy is currently a prime approach to cancer treatment. Despite the promise of immunotherapies such as immune checkpoint blockade on multiple cancers, most patients do not have a response or become resistant to treatment. Recent work indicate that epigenetic therapies converge with cancer immunotherapy through 'viral mimicry', the antiviral response triggered by endogenous nuclei acids that derived from aberrantly transcribed endogenous retrotransposons. However, epigenetic factors that regulate endogenous retrotransposons and further modulate the immune sensitivity of tumor cells is largely unknown. Here we identified the histone demethylase PHD finger protein 8 (PHF8, KDM7B), a Jumonji C domain-containing protein that erases repressive histone marks as an essential mediator of immune escape. We found that depletion of PHF8 abrogates tumor growth, induces immune memory and augments sensitivity to immune checkpoint blockade in multiple tumor models without directly affecting tumor cell proliferation. Overall design: Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for H3K9me1, H3K9me2, H3K9me3, H3K27me2 and H4K20me1 in CT26 control and Phf8 KO cells.
Sample: CT26 Phf8 KO2_H3K9me2
SAMN30383409 • SRS14705179 • All experiments • All runs
Organism: Mus musculus
Library:
Name: GSM6475138
Instrument: Illumina NovaSeq 6000
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: PAIRED
Construction protocol: Cells were fixed with 1% formaldehyde for 10 minutes. After quenching and cell lysis, chromatin was sonicated using a E220 focused-ultrasonicator (Covaris). ChIP-seq libraries were prepared using the KAPA HTP Library Preparation Kit complemented with NEXTflex DNA Barcodes from Bioo Scientific. 10 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using 13 cycles on the thermocycler. Post amplification libraries were size selected at 250-450bp in length using Agencourt AMPure XP beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity DNA Kit.
Runs: 1 run, 23.5M spots, 7G bases, 2.2Gb
Run# of Spots# of BasesSizePublished
SRR2111901323,491,6187G2.2Gb2023-05-24

ID:
23933047

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