← BioTransfer GEO Dataset Finder
GEO series

Whole Cancer Cell Vaccine Protects Ovarian Functions in Tumor-bearing Mice through Downregulating CXCL10

GSE248829 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2024/11/01 Platform GPL28330
At a glance

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 × ovary ,Control vs 3 × ovary,MCA205 vs 3 × ovary,MCA205_PD1 vs 3 × ovary,MCA205_VACGroups 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.
Summary (written by the submitters)
Your female patients with cancer will probably become sub-fertile or infertile even though some finally overcome the cancer through various therapies. Cancer immunotherapy is recently emerging as a promising novel therapy against cancer with high malignancy and lethality, but whether or not cancer immunotherapy affect female fertility is rarely known.
Read the full summary ↓
In the present study, we employed MCA205 cells-xenografted B6 mice as model to investigate whether two popular immunotherapies, PD-1 monoclonal antibody (PD-1) and whole cancer cell vaccine (WCA), affect ovarian function. We found that MCA205 xenograft (M) conduced to decreased follicle numbers at each stage, decreased proliferation and increased apoptosis, decreased oocyte maturation rate and disrupted estrus cycle. WCA treatment significantly rescues the upper abnormalities while PD-1 didn't. Ovary RNA sequencing revealed that multiple DEGs (differentially-expressed genes) are involved in inflammation pathways. Next, cytokine microarray characterized CXCL10 with both biggest increment in M group and best rescue in WCA group. Next, CXCL10 antibody Immunoprecipitation in ovarian lysate and LC-MS baited the only receptor IL18R1. Next, we found that CXCL10 could at least impaired ovarian function through three pathways: it can increase ovarian inflammation through CXCL10→IL18R1→p-P65, induce ovarian fibrosis through CXCL10→IL18R1→p-JNK→COL1A1, and promote primordial follicle overactivation through CXCL10→IL18R1→p-AKT. Finally, we succeeded in rescuing ovarian function in M group through blocking the CXCL10→IL18R1 binding with CXCL10 antibody or a CXCL10-IL18R1 interface peptide. This study provided both mechanical evidences and translational strategies for whole cell vaccine in achieving dual functions, suppressing tumor progression meanwhile protecting ovarian function.
This dataset
Open GSE248829 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE248829_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1046078 and SRA study SRP475507. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × ovary ,Control vs 3 × ovary,MCA205 vs 3 × ovary,MCA205_PD1 vs 3 × ovary,MCA205_VAC

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.

Samples in this study
Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

Share this dataset

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.