Spatial and scRNAseq profiling of murine glioblastomas treated with and without anti-CSF-1R inhibitors
Single-cell RNA-seq · mouse · 23 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 23 samples: 4 × 28day vs 3 × 7day vs 3 × Rebound vs 3 × UntreatedGroups 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
- Fibrotic response to anti-CSF-1R therapy potentiates glioblastoma recurrenceCancer cell · 2024
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 GSE266971_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1108852 and SRA study SRP432007. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 13 samples.
How we read this: 4 replicated groups read from 23 sample titles; they account for 13 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.
- GSM7162888 41390-14d
- GSM7162889 41397-7d
- GSM7162890 41405-7d
- GSM7162891 41407-14d
- GSM7162892 41415-UT
- GSM7162893 41420-UT
- GSM7162894 42358-7d
- GSM7162895 42668-UT
- GSM7162896 42669-14d
- GSM7162897 42670-14d
- GSM8257561 28day_1 28day
- GSM8257562 28day_2 28day
- GSM8257563 28day_3 28day
- GSM8257564 28day_4 28day
- GSM8257565 7day_1 7day
- GSM8257566 7day_2 7day
- GSM8257567 7day_3 7day
- GSM8257568 Rebound_1 Rebound
- GSM8257569 Rebound_2 Rebound
- GSM8257570 Rebound_3 Rebound
- GSM8257571 Untreated_1 Untreated
- GSM8257572 Untreated_2 Untreated
- GSM8257573 Untreated_3 Untreated
- GSE229409 Gene expression profile at single cell level of murine glioblastomas treated with and without anti-CSF-1R inhibitors 10 samples shares glioblastomas, anti-csf-1r, inhibitors, treated, without
- GSE298720 Global gene expression profiles were compared among IL1B-treated, Ad-OSCAR-treated, and control mice, with or without subsequent treatment with OSCAR inhibitors (Brivudine or Adefovir). 35 samples shares inhibitors, treated, without
- GSE209647 Transcriptomic studies on ruxolitinib with or without checkpoint inhibitors as a cancer therapy 14 samples shares inhibitors, without
- GSE201128 The response to lipopolysaccharide (LPS) of bone marrow derived macrophages treated with oxysterol binding protein (OSBP) inhibitors 30 samples shares inhibitors, treated
- GSE300367 Profiling Immune-Independent Response to Immune Checkpoint Inhibitors on Stem Cell-derived Cardiac Organoids [scRNAseq_Mouse] 3 samples shares inhibitors, scrnaseq
- GSE211774 RNA-seq of bilateral frontal cortex tissues in mice treated with HDAC complex inhibitors 22 samples shares inhibitors, treated
- GSE296027 Spatial distribution and chromatin accessibility determine the therapeutic capacity of microglial subsets during neurodegeneration [scRNAseq2_Csf1] 17 samples shares scrnaseq, spatial
- GSE249265 Transcriptomics of BMDM treated with PTEN in the presence or absence of STAT1 inhibitors 16 samples shares inhibitors, treated
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.