Transcriptomic profiling of epigenetic regulators and metabolic reprogramming in human cholangiocarcinoma [liver]
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 × R32_25Groups 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
- Transcriptomic profiling of epigenetic regulators and metabolic reprogramming in human cholangiocarcinomaFrontiers in cell and developmental biology · 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 GSE316440_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 PRJNA1402913 and SRA study SRP662143. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 1 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.
- GSM9453201 R32_25_30 R32_25
- GSM9453202 R32_25_31 R32_25
- GSM9453203 R32_25_32 R32_25
- GSM9453204 R32_25_33 R32_25
- GSM9453205 R32_25_34 R32_25
- GSM9453206 R32_25_35 R32_25
- GSM9453207 R32_25_1 R32_25
- GSM9453208 R32_25_10 R32_25
- GSM9453209 R32_25_11 R32_25
- GSM9453210 R32_25_12 R32_25
- GSM9453211 R32_25_2 R32_25
- GSM9453212 R32_25_3 R32_25
- GSE270509 In vivo CRISPR screen reveals interplay of epigenetic regulators underlies kinetics of hepatobiliary reprogramming [RNA-Seq] 27 samples shares reprogramming, epigenetic, regulators
- GSE99296 α-ketoglutarate orchestrates macrophage activation through metabolic and epigenetic reprogramming 18 samples shares reprogramming, epigenetic
- GSE294258 Intracellular iron homeostasis-regulated epigenetic reprogramming contributes to -7/del(7q) leukemia 71 samples shares reprogramming, epigenetic
- GSE301501 Extracellular matrix reprogramming by the YAP/TAZ/TGF-ß2 axis drives immune exclusion in cholangiocarcinoma models 45 samples shares cholangiocarcinoma, reprogramming
- GSE274865 Epigenetic regulators of clonal hematopoiesis control CD8 T cell stemness during immunotherapy [CUT&Tag] 36 samples shares epigenetic, regulators
- GSE298195 Herbal terpenoids activate autophagy and mitophagy through modulation of bioenergetics and protect from metabolic stress, sarcopenia and epigenetic aging [Quantseq_cell] 12 samples shares epigenetic
- GSE309415 Bile acid receptor Tgr5 prevents macrophage hyperinflammation during bacterial sepsis through metabolic and epigenetic silencing 12 samples shares epigenetic
- GSE319397 Particle Reprogramming of the TLR–Ferroptosis Axis and Immunometabolic Pathways Inhibits Myeloid Suppression to Improve Checkpoint Blockade in Prostate Cancer 9 samples shares reprogramming
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.