Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AML (RNA-Seq)
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × RNA Runx1 Mir-146 KO vs 3 × RNA Runx1 vs 3 × RNA Empty vs 3 × RNA Mir-146 KO/EmptyGroups 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
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 GSE264051_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 PRJNA1100613 and SRA study SRP501890. 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.
- 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
- GSE264053 Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AML 24 samples shares runx1, aml, dysregulated, cooperates, mutations, transform, mds-like
- GSE171815 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (RNA-seq - mus musculus) 27 samples shares cooperates, transform, rna-seq
- GSE266948 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (scRNA-seq - mus musculus) 10 samples shares cooperates, transform, rna-seq
- GSE299379 KAT6A Chimeras Forms a Self-Reinforcing Epigenetic Module with NURF and MLL/COMPASS in AML [RNA-Seq] 35 samples shares aml, rna-seq
- GSE292853 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. [II] 35 samples shares aml, rna-seq
- GSE327228 RNA Terminal Uridylyl-Transferases Are Druggable Vulnerabilities in AML, but are Dispensable for Normal Hematopoiesis [RNA-seq] 27 samples shares aml, rna-seq
- GSE230264 The transcriptional co-repressor Runx1t1 is essential for N-Myc-driven neuroblastoma tumorigenesis [RNA-Seq 2] 16 samples shares runx1, rna-seq
- GSE274479 Non-Canonical PRC1.1 is required for the activity of Menin-MLL1 Inhibitors in NUP98-Rearranged AML [RNA-seq] 15 samples shares aml, 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.