Bile acid synthesis impedes tumor-specific T cell responses during liver cancer.
RNA-seq (gene expression) · mouse · 48 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
- 48 samples: 8 conditions, mostly in triplicateGroups 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
- Bile acid synthesis impedes tumor-specific T cell responses during liver cancerScience (New York, N.Y.) · 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 GSE279099_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 PRJNA1170408 and SRA study SRP537220. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 8 replicated groups read from 48 sample titles; they account for 24 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.
- GSM8561399 Control, replicate 1 Control,
- GSM8561400 Control, replicate 2 Control,
- GSM8561401 Control, replicate 3 Control,
- GSM8561402 LCA, replicate 1 LCA,
- GSM8561403 LCA, replicate 2 LCA,
- GSM8561404 LCA, replicate 3 LCA,
- GSM8561405 IsoAlloLCA, replicate 1 IsoAlloLCA,
- GSM8561406 IsoAlloLCA, replicate 2 IsoAlloLCA,
- GSM8561407 IsoAlloLCA, replicate 3 IsoAlloLCA,
- GSM8561408 IsoLCA, replicate 1 IsoLCA,
- GSM8561409 IsoLCA, replicate 2 IsoLCA,
- GSM8561410 IsoLCA, replicate 3 IsoLCA,
- GSM8561411 DehydroLCA, replicate 1 DehydroLCA,
- GSM8561412 DehydroLCA, replicate 2 DehydroLCA,
- GSM8561413 DehydroLCA, replicate 3 DehydroLCA,
- GSM8561414 TCA, replicate 1 TCA,
- GSM8561415 TCA, replicate 2 TCA,
- GSM8561416 TCA, replicate 3 TCA,
- GSM8561417 TCDCA, replicate 1 TCDCA,
- GSM8561418 TCDCA, replicate 2 TCDCA,
- GSM8561419 TCDCA, replicate 3 TCDCA,
- GSM8561420 UDCA, replicate 1 UDCA,
- GSM8561421 UDCA, replicate 2 UDCA,
- GSM8561422 UDCA, replicate 3 UDCA,
- GSM8561423 sample1_WT-1
- GSM8561424 sample2_WT-2
- GSM8561425 sample3_WT-3
- GSM8561426 sample4_Nur77-1
- GSM8561427 sample5_Nur77-2
- GSM8561428 sample6_Nur77-3
- GSM8561429 sample7_WT-LCA10-1
- GSM8561430 sample8_WT-LCA10-2
- GSM8561431 sample9_WT-LCA10-3
- GSM8561432 sample10_Nur77-LCA10-1
- GSM8561433 sample11_Nur77-LCA10-2
- GSM8561434 sample12_Nur77-LCA10-3
- GSM8561435 sample13_WT-LCA50-1
- GSM8561436 sample14_WT-LCA50-2
- GSM8561437 sample15_WT-LCA50-3
- GSM8561438 sample16_Nur77-LCA50-1
+ 8 more — browse all 48 samples with per-sample file links →
- GSE279096 Bile acid synthesis impedes tumor-specific T cell responses during liver cancer [RNA-seq1] 24 samples shares tumor-specific, synthesis, impedes, liver, bile, acid
- GSE288530 Microenvironmental arginine restriction sensitizes pancreatic cancers to polyunsaturated fatty acids by suppression of lipid synthesis 18 samples shares synthesis, acid
- GSE236129 Activation of RAS/MEK/ERK signaling drives biliary differentiation in primary liver cancer [112UE] 80 samples shares liver
- GSE228579 Chronic stress disrupts hepatic homeostasis and accelerates liver cancer progression through ADRB2 signaling 66 samples shares liver
- GSE313654 Activated Interferon Signaling Suppresses Age-Dependent Liver Cancer [RNAseq_MycRux] 58 samples shares liver
- GSE324743 Hepatocytes promote liver metastasis of pancreatic cancer by providing exogenous serine 24 samples shares liver
- GSE232264 Hepatocytes coordinate immune evasion in cancer via release of serum amyloid A proteins [Liver] 18 samples shares liver
- GSE266900 Cxcr3 promotes protection from colorectal cancer liver metastasis by driving NK infiltration and plasticity 18 samples shares liver
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.