Reactive astrocytes with inflammatory signature in CCM disease in hypoxia and normoxia conditions
RNA-seq (gene expression) · mouse · 21 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
- 21 samples: 7 × KOHypoxia vs 5 × FloxHypoxia vs 4 × KONormoxia vs 4 × FloxNormoxiaGroups 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.
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 GSE236162_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 PRJNA989156 and SRA study SRP446583. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 21 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.
- GSM7519055 KONormoxia1 KONormoxia
- GSM7519056 KONormoxia2 KONormoxia
- GSM7519057 KONormoxia3 KONormoxia
- GSM7519058 KONormoxia4 KONormoxia
- GSM7519059 FloxNormoxia1 FloxNormoxia
- GSM7519060 FloxNormoxia2 FloxNormoxia
- GSM7519061 FloxNormoxia3 FloxNormoxia
- GSM7519062 FloxNormoxia4 FloxNormoxia
- GSM7519063 KOHypoxia1 KOHypoxia
- GSM7519064 KOHypoxia2 KOHypoxia
- GSM7519065 KOHypoxia3 KOHypoxia
- GSM7519066 KOHypoxia4 KOHypoxia
- GSM7519067 KOHypoxia5 KOHypoxia
- GSM7519068 KOHypoxia6 KOHypoxia
- GSM7519069 KOHypoxia7 KOHypoxia
- GSM7519070 FloxHypoxia1 FloxHypoxia
- GSM7519071 FloxHypoxia2 FloxHypoxia
- GSM7519072 FloxHypoxia3 FloxHypoxia
- GSM7519073 FloxHypoxia4 FloxHypoxia
- GSM7519074 FloxHypoxia5 FloxHypoxia
- GSM7519075 FloxHypoxa6
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- GSE330617 Transcriptomic profiling of astrocytes under three extracellular acidification conditions 12 samples shares astrocytes, conditions
- GSE272157 RNA sequencing of lung tissue from wildtype and hypoxia-induced pulmonary hypertension/hypoxia-induced pulmonary hypertension mice under aerobic exercise conditions 10 samples shares conditions, hypoxia
- GSE304763 A pan-immunotherapy signature to predict intratumoral CD8+ T cell expansions [scTCR_immunotherapies] 91 samples shares signature
- GSE274125 Timestamp tracing delineates thymic regulatory T cell ontogeny in native conditions [scRNA-seq] 20 samples shares conditions
- GSE294180 Assessing the impact of microplastics in inflammatory liver conditions using spatial single cell transcriptomics 19 samples shares conditions
- GSE253570 Molecular signatures and spatial distribution of disease-associated cellular populations in early-onset Alzheimer's disease mouse brain 12 samples shares signature
- GSE236963 Spatial Transcriptomics of Meningeal Inflammation Reveals Variable Penetrance of Inflammatory Gene Signatures into Adjacent Brain Parenchyma 11 samples shares signature
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.