Next-generation sequencing to define the impact of Cxcl1 on murine MSC transcriptome and BM-PCa tumor microenvironment
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 5 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
- Targeted Deletion of Cxcl1 in MSCs Regulates Osteogenesis and Suppresses Bone-Metastatic Prostate CancerMolecular cancer research : MCR · 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 GSE268815_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 PRJNA1118780 and SRA study SRP511089. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 5 replicated groups read from 24 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.
- GSM8299867 ScrCtl1 ScrCtl
- GSM8299868 ScrCtl2 ScrCtl
- GSM8299869 ScrCtl3 ScrCtl
- GSM8299870 A1 A
- GSM8299871 A2 A
- GSM8299872 A3 A
- GSM8299873 B1 B
- GSM8299874 B2 B
- GSM8299875 B3 B
- GSM8299876 C1 C
- GSM8299877 C2 C
- GSM8299878 C3 C
- GSM8299879 Sample1 Sample
- GSM8299880 Sample2 Sample
- GSM8299881 Sample3 Sample
- GSM8299882 Sample4 Sample
- GSM8299883 Sample5 Sample
- GSM8299884 Sample6 Sample
- GSM8299885 Sample7 Sample
- GSM8299886 Sample8 Sample
- GSM8299887 Sample9 Sample
- GSM8299888 Sample10 Sample
- GSM8299889 Sample11 Sample
- GSM8299890 Sample12 Sample
- GSE295816 Tissue factor pathway inhibitor promotes the migration, proliferation and colonization of MSCs by regulating CXCL12/CXCR4 signaling pathway 20 samples shares cxcl1, msc
- 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, impact
- GSE275908 CXCL12-CXCR4 signaling mediates the formation of a macrophageal niche for mammary gland development and tumorigenesis 30 samples shares cxcl1
- GSE303349 CXCL16-driven CD4+ T cells orchestrate immunosurveillance against MHC-I-deficient tumors 24 samples shares cxcl1
- GSE264497 Intestinal Epithelial C/EBPβ Deficiency Impairs Colitis-Associated Tumorigenesis by Disrupting CXCL1 /CXCL2/CXCL5-CXCR2-Mediated Neutrophil Infiltration [RNA-seq ] 15 samples shares cxcl1
- GSE266396 Cx43-mediated mitochondrial transfer from MSCs mitigate oxidative stress-inflammation interplay in IRI-AKI via PGC1a activation 40 samples shares msc
- GSE263678 Time‑course analysis of cisplatin induced AKI in preclinical models: implications for testing different sources of MSCs 32 samples shares msc
- GSE246193 Genetic and pharmaceutical targeting of Suv39h1 ameliorates renal fibrosis by unlocking CXCL10 transcription 22 samples shares cxcl1
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.