Ablation of Id1 Reduces Clonal Hematopoiesis, Genomic Instability and Delays Leukemia in Mice with Tet2 Loss of Function [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: 12 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 GSE266580_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 PRJNA1107619 and SRA study SRP505583. 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 12 sample titles: 12 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.
- GSM8252007 Sample_5_WT_LK
- GSM8252008 Sample_5_WT_LK_2x
- GSM8252009 Sample_5_WT_LK_3x
- GSM8252010 Sample_6_Tet2KO_LK
- GSM8252011 Sample_6_Tet2KO_LK_2x
- GSM8252012 Sample_6_Tet2KO_LK_3x
- GSM8252013 Sample_7_Id1KO_LK
- GSM8252014 Sample_7_Id1KO_LK_2x
- GSM8252015 Sample_7_Id1KO_LK_3x
- GSM8252016 Sample_8_dKO_LK
- GSM8252017 Sample_8_dKO_LK_2x
- GSM8252018 Sample_8_dKO_LK_3x
- GSE327454 TET2-mutant clonal hematopoiesis prevents T-cell exhaustion and suppresses cancer metastasis [RNA-seq] 19 samples shares tet2, hematopoiesis, rna-seq, clonal
- GSE298064 Metabolic control of innate immune activation in TET2-mutant clonal hematopoiesis 26 samples shares tet2, hematopoiesis, clonal
- GSE190226 Concomitant loss of TET2 and TET3 results in T cell expansion and genomic instability [BGI-RNA-Seq] 21 samples shares tet2, instability, rna-seq
- GSE270710 Tet2-mediated clonal hematopoiesis improves neurological deficits and is associated with inflammation resolution in the subacute phase of stroke 12 samples shares tet2, hematopoiesis, clonal
- GSE276311 Two mutations associated with leukemia that change a single tyrosine residue in the STAT5B SH2 domain have opposite effects on the transcriptional programs controlling hematopoiesis [RNA-seq] 61 samples shares hematopoiesis, leukemia, rna-seq
- GSE276312 Two mutations associated with leukemia that change a single tyrosine residue in the STAT5B SH2 domain have opposite effects on the transcriptional programs controlling hematopoiesis [scRNA-seq] 23 samples shares hematopoiesis, leukemia, rna-seq
- GSE272266 Sex differences in DNMT3A-mutant clonal hematopoiesis and the effects of estrogen [scRNA-Seq] 20 samples shares hematopoiesis, rna-seq, clonal
- GSE274878 A mutant ASXL1-EHMT complex contributes to heterochromatin dysfunction in clonal hematopoiesis and chronic monomyelocytic leukemia [RNAseq_mouse] 19 samples shares hematopoiesis, leukemia, clonal
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.