Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 103 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
- Mus musculus (mouse)
- Topic
- Acute myeloid leukemiaThis series is part of our curated briefing on it.
- Samples
- 103 samples: 103 samples, each with a distinct title — no replicated groupsGroups 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 GSE63782_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 PRJNA269063 and SRA study SRP050440. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 103 sample titles: 103 distinct titles with little repetition. 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.
- GSM1557034 RN2 Ren.713 DMSO
- GSM1557035 RN2 Ren.713 2h JQ1 200 nM
- GSM1557036 RN2 Ren.713 24h JQ1 200 nM
- GSM1557037 RN2 Dnmt3a.16 DMSO
- GSM1557038 RN2 Dnmt3a.16 2h JQ1 200 nM
- GSM1557039 RN2 Dnmt3a.16 24h JQ1 200 nM
- GSM1557040 RN2 Psip1.2474 DMSO
- GSM1557041 RN2 Psip1.2474 2h JQ1 200 nM
- GSM1557042 RN2 Psip1.2474 24h JQ1 200 nM
- GSM1557043 RN2 Suz12.909 2h JQ1 200 nM
- GSM1557044 RN2 Suz12.909 DMSO
- GSM1557045 RN2 Suz12.909 24h JQ1 200 nM
- GSM1557046 RN2 Dnmt3a.16 LT JQ1 50 nM
- GSM1557047 RN2 Suz12.909 LT JQ1 50 nM
- GSM1557048 RN2 Psip1.2474 LT JQ1 50 nM
- GSM1557049 RN2 Ren.713
- GSM1557050 RN2 Empty vector
- GSM1557051 RN2 Ezh2.718 LT JQ1 50 nM
- GSM1557052 RN2 Suz12.1842 LT JQ1 50 nM
- GSM1557053 RN2 DMSO
- GSM1557054 RN2 2h JQ1 200 nM
- GSM1557055 RN2 24h JQ1 200 nM
- GSM1557056 JQ1_H3K36me3
- GSM1557057 JQ1_H3K27me3
- GSM1557058 JQ1_Input
- GSM1557059 DMSO_H3K36me3
- GSM1557060 DMSO_H3K27me3
- GSM1557061 DMSO_Input
- GSM1557062 MOLM-13 DMSO
- GSM1557063 MOLM-13 2h JQ1 200 nM
- GSM1557064 MOLM-13 24h JQ1 200 nM
- GSM1557065 KASUMI-1 DMSO
- GSM1557066 KASUMI-1 2h JQ1 200 nM
- GSM1557067 KASUMI-1 24h JQ1 200 nM
- GSM1557068 MV4-11 DMSO
- GSM1557069 MV4-11 2h JQ1 200 nM
- GSM1557070 MV4-11 24h JQ1 200 nM
- GSM1557071 MEG-1 DMSO
- GSM1557072 MEG-1 2h JQ1 200 nM
- GSM1557073 MEG-1 24h JQ1 200 nM
+ 63 more — browse all 103 samples with per-sample file links →
- GSE303795 Halofuginone exerts broad-spectrum cytotoxic effects by regulating p-eIF2α-S100A8/A9-calcium signaling, inhibiting global protein synthesis, and reversing the resistance of idarubicin in acute myeloid leukemia 6 samples same disease briefing · shares resistance
- GSE129437 Genome-wde mapping of BRD9 binding sites and gene expression changes upon BRD9 knockdown 6 samples same disease briefing
- GSE137851 The long non-coding RNA HOXB-AS3 regulates ribosomal RNA transcription in NPM1-mutated acute myeloid leukemia 387 samples same disease briefing
- GSE270185 Repurposing CD19-directed immunotherapies for pediatric t(8;21) acute myeloid leukemia 249 samples same disease briefing
- GSE137574 Kevetrin induces apoptosis in TP53 wild-type and mutant acute myeloid leukemia cells 24 samples same disease briefing
- GSE122515 Bonn Dataset 3 of meta-analysis on AML classification, RNAseq dataset 0 samples same disease briefing
- GSE220722 Primary cilia as a targetable node between biliary injury, senescence and regeneration 12 samples shares bet, primary
- GSE304029 BRD2 Bromodomain-Mediated Regulation of Cell State Plasticity Modulates Therapy Response in Glioblastoma 56 samples shares bromodomain, plasticity
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.