Immunosuppressive microenvironment restrains chemotherapy efficacy in liver metastases of triple-negative breast cancer
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 5 × pre_Live vs 5 × post_Live vs 3 × pre_SC vs 3 × post_SCGroups 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
- Immunosuppressive microenvironment of liver restrains chemotherapeutic efficacy in triple-negative breast cancerJournal for immunotherapy of cancer · 2025
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 GSE276098_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 PRJNA1154683 and SRA study SRP529713. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8491064 pre_SC_1 pre_SC
- GSM8491065 pre_SC_2 pre_SC
- GSM8491066 pre_SC_3 pre_SC
- GSM8491067 pre_Liver_1 pre_Live
- GSM8491068 pre_Liver_2 pre_Live
- GSM8491069 pre_Liver_3 pre_Live
- GSM8491070 pre_Liver_4 pre_Live
- GSM8491071 pre_Liver_5 pre_Live
- GSM8491072 post_SC_1 post_SC
- GSM8491073 post_SC_2 post_SC
- GSM8491074 post_SC_3 post_SC
- GSM8491075 post_Liver_1 post_Live
- GSM8491076 post_Liver_2 post_Live
- GSM8491077 post_Liver_3 post_Live
- GSM8491078 post_Liver_4 post_Live
- GSM8491079 post_Liver_5 post_Live
- GSE317281 Integrated bulk and single-cell transcriptome analysis reveals the impact of cyclophosphamide on tumor microenvironment in triple-negative breast cancer models 14 samples shares microenvironment, triple-negative, breast
- GSE276180 Single-cell temporal landscape of tumor microenvironment of lung cancer and lung metastases 37 samples shares microenvironment, metastases
- GSE272923 Complex I Inhibition combined with TLR Activation in the Breast Tumor Microenvironment Educates Cytotoxic Neutrophils. 35 samples shares microenvironment, breast
- GSE311488 Chemotherapeutic Induction of Single-Stranded DNA Accumulation Sensitizes Triple-Negative Breast Cancer to Immunotherapy [scRNA-seq] 32 samples shares triple-negative, breast
- GSE242272 Prostaglandin E2-EP4 signaling shapes immunosuppressive tumor microenvironment in human tumors by suppressing bioenergetics and ribosome biogenesis in infiltrating immune cells [RNA-seq] 18 samples shares immunosuppressive, microenvironment
- GSE294999 Obesity-driven inflammation enables triple-negative breast cancer progression through immunosuppression [scRNA-Seq] 16 samples shares triple-negative, breast
- GSE269680 CDK8 remodels the tumor microenvironment to resist the therapeutic efficacy of targeted KRASG12D inhibition in pancreatic ductal adenocarcinoma (spatial) 15 samples shares microenvironment, efficacy
- GSE246486 Identification of disulfidptosis-related subtypes, characterization of tumor microenvironment infiltration, and development of a prognosis model in breast cancer 15 samples shares microenvironment, breast
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.