USP11 promotes prostate cancer progression by upregulating AR and c-Myc activity [CUT&RUN]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 26 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Topic
- Prostate cancerThis series is part of our curated briefing on it.
- Samples
- 26 samples: 8 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- USP11 promotes prostate cancer progression by up-regulating AR and c-Myc activityProceedings of the National Academy of Sciences of the United States of America · 2024
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE268252_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1115793 and SRA study SRP509537. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 26 sample titles; they account for 16 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8288693 RV1, pLKO.1, AR, rep1 RV1, pLKO.1, AR,
- GSM8288694 RV1, pLKO.1, AR, rep2 RV1, pLKO.1, AR,
- GSM8288695 RV1, USP11-KD, AR, rep1 RV1, USP11-KD, AR,
- GSM8288696 RV1, USP11-KD, AR, rep2 RV1, USP11-KD, AR,
- GSM8288697 RV1, pLKO.1, c-Myc, rep1 RV1, pLKO.1, c-Myc,
- GSM8288698 RV1, pLKO.1, c-Myc, rep2 RV1, pLKO.1, c-Myc,
- GSM8288699 RV1, USP11-KD, c-Myc, rep1 RV1, USP11-KD, c-Myc,
- GSM8288700 RV1, USP11-KD, c-Myc, rep2 RV1, USP11-KD, c-Myc,
- GSM8288701 RV1, pLKO.1, IgG
- GSM8288702 RV1, USP11-KD, IgG
- GSM8288703 Rv1, pLvx, HA, rep1 Rv1, pLvx, HA,
- GSM8288704 Rv1, pLvx, HA, rep2 Rv1, pLvx, HA,
- GSM8288705 Rv1, USP11-WT, HA-USP11, rep1 Rv1, USP11-WT, HA-USP11,
- GSM8288706 Rv1, USP11-WT, HA-USP11, rep2 Rv1, USP11-WT, HA-USP11,
- GSM8288707 Rv1, USP11-CS, HA-USP11, rep1 Rv1, USP11-CS, HA-USP11,
- GSM8288708 Rv1, USP11-CS, HA-USP11, rep2 Rv1, USP11-CS, HA-USP11,
- GSM8288709 RV1, USP11-WT, AR, rep1
- GSM8288710 RV1, USP1-WT, AR, rep2
- GSM8288711 RV1, USP11-CS, AR, rep1
- GSM8288712 RV1, USP11-CS, AR, rep2
- GSM8288713 RV1, USP11-WT, c-Myc,rep1
- GSM8288714 RV1,USP11-WT, c-Myc, rep2
- GSM8288715 RV1, USP11-CS, c-Myc, rep1 RV1, USP11-CS, c-Myc,
- GSM8288716 RV1, USP11-CS, c-Myc,rep2 RV1, USP11-CS, c-Myc,
- GSM8288717 RV1, USP11-WT, IgG
- GSM8288718 RV1, USP11-CS, IgG
- GSE242541 ONECUT2 is a druggable driver of luminal to basal breast cancer plasticity 12 samples same disease briefing · shares cut
- GSE115501 RNA sequencing on circulating tumor cells from prostate cancer patients 136 samples same disease briefing · shares prostate
- GSE222467 The RNA binding proteins LARP4A and LARP4B promote tumour growth and metastasis in prostate cancer and osteosarcoma 12 samples same disease briefing · shares prostate
- GSE300947 A novel six-biomarker panel identified from male breast cancer-associated fibroblasts demonstrates prognostic power for prostate tumors 6 samples same disease briefing · shares prostate
- GSE120181 Human prostate cancer cell line, 22Rv1: Control vs. luteolin treatment 2 samples same disease briefing · shares prostate
- GSE71008 Plasma extracellular RNA profiles in healthy and cancer patients 192 samples same disease briefing
- GSE287902 BPTF regulstes androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction [Cut&Run] 40 samples shares cut, run, activity
- GSE324154 Therapy Induced Senescence Promotes Immunogenicity in Acute Myeloid Leukemia through Reduced EZH2 Activity 22 samples shares cut, promotes, activity
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.