Microglia are not necessary for maintenance of blood-brain barrier properties in health, but PLX5622 alters brain endothelial cholesterol metabolism (Brain Endo Bulk Seq)
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 3 × control diet, male, biol vs 3 × PLX5622 diet, male, biol vs 2 × control diet, female, biol vs 2 × PLX5622 diet, female, biolGroups 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
- Microglia are not necessary for maintenance of blood-brain barrier properties in health, but PLX5622 alters brain endothelial cholesterol metabolismNeuron · 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 GSE267592_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 PRJNA1111908 and SRA study SRP508006. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8269457 control diet, male, biol rep 1 control diet, male, biol
- GSM8269458 control diet, male, biol rep 2 control diet, male, biol
- GSM8269459 control diet, male, biol rep 3 control diet, male, biol
- GSM8269460 control diet, female, biol rep 1 control diet, female, b…
- GSM8269461 control diet, female, biol rep 2 control diet, female, b…
- GSM8269462 PLX5622 diet, male, biol rep 1 PLX5622 diet, male, biol
- GSM8269463 PLX5622 diet, male, biol rep 2 PLX5622 diet, male, biol
- GSM8269464 PLX5622 diet, male, biol rep 3 PLX5622 diet, male, biol
- GSM8269465 PLX5622 diet, female, biol rep 1 PLX5622 diet, female, b…
- GSM8269466 PLX5622 diet, female, biol rep 2 PLX5622 diet, female, b…
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- GSE192687 Single-cell RNAseq analysis of renal endothelial cells in murine diabetic nephropathy 5464 samples shares endothelial
- GSE229427 Tracking spatio-temporal dynamics of the endothelial niche during fetal hematopoiesis 216 samples shares endothelial
- GSE302188 Multi-omics analysis highlights the link of aging-related cognitive decline with systemic inflammation and alterations of tissue-maintenance 165 samples shares maintenance
- GSE241206 Vascular and perivascular cell profiling reveals the molecular and cellular bases of blood-brain barrier heterogeneity 105 samples shares blood-brain
- GSE294512 eIF4G2-mediated Translation Initiation of Histone Modifiers is Essential for Intestinal Stem Cell Maintenance and Differentiation [RNA-seq] 92 samples shares maintenance
- GSE271971 Pulmonary microvascular endothelial cells support alveolar epithelial growth via bone morphogenetic protein 6 secretion 72 samples shares endothelial
- GSE297451 Temporal and Context-Dependent Requirements for the Transcription Factor Foxp3 in Regulatory T Cell Development and Maintenance [RNA-seq] 70 samples shares maintenance
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.