TSG-6 mediated extracellular matrix modifications regulate hypoxic-ischemic brain injury
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 6 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
- TSG-6-Mediated Extracellular Matrix Modifications Regulate Hypoxic-Ischemic Brain InjuryThe Journal of neuroscience : the official journal of the Society for Neuroscience · 2024
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 GSE249085_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 PRJNA1047137 and SRA study SRP475154. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 6 replicated groups read from 20 sample titles; they account for 20 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.
- GSM7926109 serum treated WT forebrain slice 1 serum treated WT forebr…
- GSM7926110 serum treated WT forebrain slice 2 serum treated WT forebr…
- GSM7926111 serum treated WT forebrain slice 3 serum treated WT forebr…
- GSM7926112 serum treated KO forebrain slice 1 serum treated KO forebr…
- GSM7926113 serum treated KO forebrain slice 2 serum treated KO forebr…
- GSM7926114 serum treated KO forebrain slice 3 serum treated KO forebr…
- GSM8161224 Het female1 Het female
- GSM8161225 Het female2 Het female
- GSM8161226 Het female3 Het female
- GSM8161227 KO female1 KO female
- GSM8161228 KO female2 KO female
- GSM8161229 KO female3 KO female
- GSM8161230 KO female4 KO female
- GSM8161231 Het male1 Het male
- GSM8161232 Het male2 Het male
- GSM8161233 Het male3 Het male
- GSM8161234 KO male1 KO male
- GSM8161235 KO male2 KO male
- GSM8161236 KO male3 KO male
- GSM8161237 KO male4 KO male
- GSE312452 MicroRNA210 regulated brain pericyte dysfunction exacerbates hypoxic-ischemic brain injury in neonatal mice 15 samples shares hypoxic-ischemic, regulate, injury
- GSE295428 Spaceflight induces systemic effects on extracellular matrix and immune system in different age-stages 229 samples shares extracellular, matrix
- GSE287100 Sex-specific extracellular matrix remodeling in skeletal muscle after extended immobilization 112 samples shares extracellular, matrix
- GSE242731 Class switch recombination regulation by extracellular vesicles mediated intercellular epigenomic signaling 48 samples shares extracellular, mediated
- GSE272272 Changes in the astrocyte translatome induced by developmental ethanol mediate dysregulation of neuronal development: role of the extracellular matrix and relevance to Fetal Alcohol Spectrum Disorders 48 samples shares extracellular, matrix
- GSE293374 An extracellular matrix niche secreted by epithelial cells drives intestinal organoid formation (RNA-seq) 44 samples shares extracellular, matrix
- GSE264169 Modulating the Extracellular Matrix to Treat Wound Healing Defects in Ehlers-Danlos Syndrome 35 samples shares extracellular, matrix
- GSE288213 Altered pathways in Cockayne syndrome: Involvement of MAPK, PI3K-Akt, extracellular matrix, inflammation, and neuronal signaling 30 samples shares extracellular, matrix
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.