The origin of hepatocellular carcinoma is regulated by metabolic zonation [RNA-seq]
RNA-seq (gene expression) · mouse · 26 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
- 26 samples: 20 distinct titles, 2 of them repeatedGroups 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
- The origin of hepatocellular carcinoma depends on metabolic zonationScience (New York, N.Y.) · 2026
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 GSE308568_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 PRJNA1331557 and SRA study SRP622247. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 26 sample titles: 20 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.
- GSM9248306 CAB145-L
- GSM9248307 CAB170-S2
- GSM9248308 CAB26-L
- GSM9248309 CAB28-S
- GSM9248310 CAB28-L
- GSM9248311 CAB44-L
- GSM9248312 CAB52-L
- GSM9248313 CAB225-L
- GSM9248314 CAB228-M
- GSM9248315 CAB239-M
- GSM9248316 CB6-L
- GSM9248317 GAB18-M
- GSM9248318 GAB229-M
- GSM9248319 GAB235-S
- GSM9248320 GAB242-S
- GSM9248321 GAB242-M
- GSM9248322 GAB242-L
- GSM9248323 GAB294-S
- GSM9248324 GAB294-M1
- GSM9248325 GAB294-M2
- GSM9248326 WT_Cre-BL1
- GSM9248327 WT_Cre-BL2
- GSM9248328 WT_Cre-BL3
- GSM9248329 WT_Cre-BL4
- GSM9248330 WT_Cre-BL5
- GSM9248331 WT_Cre-BL6
- GSE300288 Single-cell and spatial transcriptomics analysis of tobacco-associated lung adenocarcinoma development, and in response to targeting inflammation alone or in combination with immune checkpoint blockade in precancerous phase [scRNA-seq] 31 samples shares rna-seq
- GSE291118 Macropinocytosis maintains CAF subtype identity under metabolic stress in pancreatic cancer [RNA-seq] 20 samples shares rna-seq
- GSE262879 Single-cell RNA-sequencing of murine pancreatic tumors derived from the orthotopic transplantation of Smad4 wild-type (WT) or Smad4 knockout (KO) pancreatic ductal adenocarcinoma (PDAC) KPC organoids in nu/nu mice. 18 samples shares rna-seq
- GSE263415 Spatial hepatocyte plasticity of gluconeogenic gene expression and gluconeogenic activity during the metabolic transitions between fed, fasted and starvation states [RNA-Seq] 18 samples shares rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE277789 Spatiotemporal and genetic cell lineage tracing of endodermal organogenesis at single-cell resolution [Smart-seq3-RNA-seq-add] 830 samples shares rna-seq
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares 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.