Characterization of the effects of ISX9 treatment on RBPJ target genes. [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 20 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)
- Samples
- 20 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.
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 GSE288448_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 PRJNA1217573 and SRA study SRP560817. 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 20 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.
- GSM8768085 K27ac_ChIP_12h_DMSO_1 K27ac_ChIP_12h_DMSO
- GSM8768086 K27ac_ChIP_12h_DMSO_2 K27ac_ChIP_12h_DMSO
- GSM8768087 K27ac_ChIP_12h_ISX9_1 K27ac_ChIP_12h_ISX9
- GSM8768088 K27ac_ChIP_12h_ISX9_2 K27ac_ChIP_12h_ISX9
- GSM8768089 K4me1_ChIP_12h_DMSO_1 K4me1_ChIP_12h_DMSO
- GSM8768090 K4me1_ChIP_12h_DMSO_2 K4me1_ChIP_12h_DMSO
- GSM8768091 K4me1_ChIP_12h_ISX9_1 K4me1_ChIP_12h_ISX9
- GSM8768092 K4me1_ChIP_12h_ISX9_2 K4me1_ChIP_12h_ISX9
- GSM8768093 K4me3_ChIP_12h_DMSO_1 K4me3_ChIP_12h_DMSO
- GSM8768094 K4me3_ChIP_12h_DMSO_2 K4me3_ChIP_12h_DMSO
- GSM8768095 K4me3_ChIP_12h_ISX9_1 K4me3_ChIP_12h_ISX9
- GSM8768096 K4me3_ChIP_12h_ISX9_2 K4me3_ChIP_12h_ISX9
- GSM8768097 Mods_12h_DMSO_Input
- GSM8768098 Mods_12h_ISX9_Input
- GSM8768099 RBPJ_ChIP_ev_1 RBPJ_ChIP_ev
- GSM8768100 RBPJ_ChIP_ev_2 RBPJ_ChIP_ev
- GSM8768101 RBPJ_ChIP_ev_Input
- GSM8768102 RBPJ_ChIP_RBPJKO_1 RBPJ_ChIP_RBPJKO
- GSM8768103 RBPJ_ChIP_RBPJKO_2 RBPJ_ChIP_RBPJKO
- GSM8768104 RBPJ_ChIP_RBPJKO_Input
- GSE337829 Integrated single-cell profiling of RNA and DNA interactomes reveals targetable chromatin architectures in cancer [ChIP-Seq] 32 samples shares chip-seq, target
- GSE262166 Treatment of cholangiocarcinoma using humanized monoclonal antibodies targeting Claudin-1 77 samples shares treatment, target
- GSE331214 Single-cell profiling across treatment stages enables precision targeting of therapy-resistant neuroblastoma 38 samples shares treatment, target
- GSE333617 Targeting JAK1/3-STAT1 signaling attenuates cytotoxic T lymphocytes activation for the treatment in Stevens-Johnson syndrome and toxic epidermal necrolysis 26 samples shares treatment, target
- GSE264573 Single Cell Analysis of Treatment–Resistant Prostate Cancer: Implications of Cell State Changes for Cell Surface Antigen Targeted Therapies 4 samples shares treatment, target
- GSE277608 Characterization of induced cohesin loop extrusion trajectories in living cells [ChIP-seq] 147 samples shares chip-seq
- GSE280574 mChIP-seq for high-throughput epigenomic profiling reveals a decoupling of H2A.Z and H3K4me3 in cancer 576 samples shares chip-seq
- GSE298767 Dose-dependent Effects of Estrogen on Genomic Regulation in Breast Cancer Cells [ChIP-seq] 63 samples shares chip-seq
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.