Leukemia risk factor ARID5B Coordinates HDAC-Mediated Transcriptional Repression [RNA-Seq]
RNA-seq (gene expression) · human · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 3 × NALM6_Cas9_RNA-seq vs 3 × NALM6_ARID5B_KO_RNA-seq vs 3 × NALM6_Cas9_DMSO_RNA-seq vs 3 × NALM6_Cas9_Entino_RNA-seqGroups 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
- Leukemia risk factor ARID5B coordinates HDAC-mediated transcriptional repressionNucleic acids research · 2026
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 GSE297397_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1263761 and SRA study SRP586027. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8990099 NALM6_Cas9_RNA-seq_rep1 NALM6_Cas9_RNA-seq
- GSM8990100 NALM6_Cas9_RNA-seq_rep2 NALM6_Cas9_RNA-seq
- GSM8990101 NALM6_Cas9_RNA-seq_rep3 NALM6_Cas9_RNA-seq
- GSM8990102 NALM6_ARID5B_KO_RNA-seq_rep1 NALM6_ARID5B_KO_RNA-seq
- GSM8990103 NALM6_ARID5B_KO_RNA-seq_rep2 NALM6_ARID5B_KO_RNA-seq
- GSM8990104 NALM6_ARID5B_KO_RNA-seq_rep3 NALM6_ARID5B_KO_RNA-seq
- GSM8990105 NALM6_Cas9_DMSO_RNA-seq_rep1 NALM6_Cas9_DMSO_RNA-seq
- GSM8990106 NALM6_Cas9_DMSO_RNA-seq_rep2 NALM6_Cas9_DMSO_RNA-seq
- GSM8990107 NALM6_Cas9_DMSO_RNA-seq_rep3 NALM6_Cas9_DMSO_RNA-seq
- GSM8990108 NALM6_Cas9_Entino_RNA-seq_rep1 NALM6_Cas9_Entino_RNA-s…
- GSM8990109 NALM6_Cas9_Entino_RNA-seq_rep2 NALM6_Cas9_Entino_RNA-s…
- GSM8990110 NALM6_Cas9_Entino_RNA-seq_rep3 NALM6_Cas9_Entino_RNA-s…
- GSE297401 Leukemia risk factor ARID5B Coordinates HDAC-Mediated Transcriptional Repression 59 samples shares arid5b, hdac-mediated, coordinates, repression, leukemia, factor, risk
- GSE297398 Leukemia risk factor ARID5B Coordinates HDAC-Mediated Transcriptional Repression [CUT&Run] 47 samples shares arid5b, hdac-mediated, coordinates, repression, leukemia, factor, risk
- GSE284558 CEBPA repression by MECOM blocks differentiation to drive aggressive leukemias [RNA-Seq] 28 samples shares repression, leukemia, rna-seq
- GSE275690 A bifunctional, moonlighting RNA coordinates pathways to regulate human embryonic development [RNA-seq] 120 samples shares coordinates, rna-seq
- GSE254242 Cancer cell type-specific derepression of transposable elements by inhibition of chromatin modifier enzymes [RNA-Seq] 99 samples shares repression, rna-seq
- GSE271648 Macromolecular interactions dictate Polycomb-mediated epigenetic repression [RNA-seq] 95 samples shares repression, rna-seq
- GSE224794 Capturing totipotency in human cells through spliceosomal repression [RNA-Seq] 92 samples shares repression, rna-seq
- GSE287183 Epigenetic de-repression of drivers of neuroendocrine prostate cancer [RNA-seq] 36 samples shares repression, rna-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.