Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AML
RNA-seq (gene expression) · mouse · 24 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
- Mus musculus (mouse)
- Samples
- 24 samples: 8 conditions, mostly in triplicateGroups 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
- Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AMLiScience · 2024
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 GSE264053_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 PRJNA1100608 and SRA study SRP501890. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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.
- GSM8209333 RNA Runx1 Mir-146 KO 1 RNA Runx1 Mir-146 KO
- GSM8209334 RNA Runx1 Mir-146 KO 2 RNA Runx1 Mir-146 KO
- GSM8209335 RNA Runx1 Mir-146 KO 3 RNA Runx1 Mir-146 KO
- GSM8209336 RNA Runx1 1 RNA Runx1
- GSM8209337 RNA Runx1 2 RNA Runx1
- GSM8209338 RNA Runx1 3 RNA Runx1
- GSM8209339 RNA Empty 1 RNA Empty
- GSM8209340 RNA Empty 2 RNA Empty
- GSM8209341 RNA Empty 3 RNA Empty
- GSM8209342 RNA Mir-146 KO/Empty 1 RNA Mir-146 KO/Empty
- GSM8209343 RNA Mir-146 KO/Empty 2 RNA Mir-146 KO/Empty
- GSM8209344 RNA Mir-146 KO/Empty 3 RNA Mir-146 KO/Empty
- GSM8209345 WES Mir-146 KO/Empty 1 WES Mir-146 KO/Empty
- GSM8209346 WES Mir-146 KO/Empty 2 WES Mir-146 KO/Empty
- GSM8209347 WES Runx1 1 WES Runx1
- GSM8209348 WES Runx1 2 WES Runx1
- GSM8209349 WES Runx1 3 WES Runx1
- GSM8209350 WES Empty 1 WES Empty
- GSM8209351 WES Empty 2 WES Empty
- GSM8209352 WES Runx1 Mir-146 KO 1 WES Runx1 Mir-146 KO
- GSM8209353 WES Empty 3 WES Empty
- GSM8209354 WES Runx1 Mir-146 KO 2 WES Runx1 Mir-146 KO
- GSM8209355 WES Mir-146 KO/Empty 3 WES Mir-146 KO/Empty
- GSM8209356 WES Runx1 Mir-146 KO 3 WES Runx1 Mir-146 KO
- GSE264051 Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AML (RNA-Seq) 12 samples shares runx1, aml, dysregulated, cooperates, mutations, transform, mds-like, innate
- GSE306851 Dysregulated ClpP Activation Depletes AML Cells and Restores T-cell Function via Metabolic Competition 10 samples shares aml, dysregulated
- GSE171815 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (RNA-seq - mus musculus) 27 samples shares cooperates, transform
- GSE173547 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (ChIP-seq - mus musculus) 17 samples shares cooperates, transform
- GSE266948 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (scRNA-seq - mus musculus) 10 samples shares cooperates, transform
- GSE269045 Inflammatory immune modulators of AML lung infiltration and respiratory failure 56 samples shares aml
- GSE273088 Ribo-lite, a method defining paired transcriptome (RNA-seq) and translatome (Ribo-seq) at low input on AML cells from mice treated with 5+3 or vehicle and fed standard amino acids (AA) or branched chain amino acid (BCAA) free diets. 42 samples shares aml
- GSE249218 Non-Canonical PRC1.1 is required for the activity of Menin-MLL1 Inhibitors in NUP98-Rearranged AML 220 samples shares aml
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.