Effect of Sirt2 deletion in mouse hepatocytes on gene experession in mouse livers overexpressed with GFP or MET/CAT
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 × WT GFP vs 3 × KO GFP vs 3 × WT MET/CAT vs 3 × KO MET/CATGroups 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
- Suppression of Hepatocellular Carcinoma by Deletion of SIRT2 in Hepatocytes via Elevated C/EBPβ/GADD45γCellular and molecular gastroenterology and hepatology · 2025
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 GSE280462_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 PRJNA1178649 and SRA study SRP541584. 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.
- GSM8598184 WT GFP_1 WT GFP
- GSM8598185 WT GFP_2 WT GFP
- GSM8598186 WT GFP_3 WT GFP
- GSM8598187 KO GFP_1 KO GFP
- GSM8598188 KO GFP_2 KO GFP
- GSM8598189 KO GFP_3 KO GFP
- GSM8598190 WT MET/CAT_1 WT MET/CAT
- GSM8598191 WT MET/CAT_2 WT MET/CAT
- GSM8598192 WT MET/CAT_3 WT MET/CAT
- GSM8598193 KO MET/CAT_1 KO MET/CAT
- GSM8598194 KO MET/CAT_2 KO MET/CAT
- GSM8598195 KO MET/CAT_3 KO MET/CAT
- GSE215759 Mettl3-dependent m6A modification is essential for effector differentiation and memory formation of CD8+ T cells [RNA-seq] 15 samples shares met, cat
- GSE336756 Compartmentalisation of m6A (N6-methyladenosine) methylated RNA in somatic or axonal subcellular locations is dependent on Nerve Growth Factor (NGF) state in sympathetic neurons [Axon-meRIP-seq] 32 samples shares met, cat
- GSE324743 Hepatocytes promote liver metastasis of pancreatic cancer by providing exogenous serine 24 samples shares met, hepatocytes
- GSE324432 A novel sorting method uncovers metabolic heterogeneity between mononucleated and binucleated tetraploid hepatocytes 15 samples shares met, hepatocytes
- GSE241165 Characterizing the gene expression profiles of 4T1 and 4T1.2 cells at different stages of bone metastsis using SMART-Seq2 technology 1248 samples shares met
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares met
- GSE290574 Gene Regulatory Networks Orchestrating Oocyte Fate Bifurcation in Primordial Follicles Revealed by Single-Cell Transcriptomics 386 samples shares cat
- GSE286046 Asymmetric Histone Inheritance Regulates Differential Transcription Re-initiation and Cell Fate Decisions in Mouse Olfactory Horizontal Basal Cells 96 samples shares met
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.