The microglial transcriptome of age-associated deep subcortical white matter lesions suggests a neuroprotective response to blood-brain barrier dysfunction
RNA-seq (gene expression) · human · 12 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
- Homo sapiens (human)
- Samples
- 12 samples: 4 × Control WML vs 4 × NAWM matched with the DSCL cases vs 4 × DSCL casesGroups 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
- The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood-Brain Barrier DysfunctionInternational journal of molecular sciences · 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 GSE260619_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 PRJNA1082353 and SRA study SRP492666. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8121059 Control WML_1 Control WML
- GSM8121060 Control WML _2 Control WML
- GSM8121061 Control WML _3 Control WML
- GSM8121062 Control WML _4 Control WML
- GSM8121063 NAWM matched with the DSCL cases_1 NAWM matched with the D…
- GSM8121064 NAWM matched with the DSCL cases_2 NAWM matched with the D…
- GSM8121065 NAWM matched with the DSCL cases_3 NAWM matched with the D…
- GSM8121066 NAWM matched with the DSCL cases_4 NAWM matched with the D…
- GSM8121067 DSCL cases_1 DSCL cases
- GSM8121068 DSCL cases_2 DSCL cases
- GSM8121069 DSCL cases_3 DSCL cases
- GSM8121070 DSCL cases_4 DSCL cases
- GSE272179 Blood-brain barrier dysfunction in response to Alzheimer's disease mutations and aged serum in a tissue-engineered microvascular model 54 samples shares blood-brain, dysfunction
- GSE279180 Cell type mapping reveals tissue niches and interactions in subcortical multiple sclerosis lesions [snRNA-seq] 16 samples shares subcortical, lesions
- GSE279183 Cell type mapping reveals tissue niches and interactions in subcortical multiple sclerosis lesions. 34 samples shares subcortical, lesions
- GSE243641 Molecular and phenotypic blueprint of the hematopoietic compartment reveals proliferation stress as a driver of age-associated human stem cell dysfunctions 31 samples shares age-associated, dysfunction
- GSE183546 Multiple Mechanistic Models Reveal the Neuroprotective Effect of Ginkgo Bilobalides for the Treatment of Ischaemic Stroke 375 samples shares neuroprotective
- GSE270290 Evidence for a role of human blood-borne factors in mediating age-associated changes in molecular circadian rhythms 208 samples shares age-associated
- GSE242198 Multi-OMIC analysis of Huntington disease reveals a neuroprotective astrocyte state 156 samples shares neuroprotective
- GSE270288 Evidence for a role of human blood-borne factors in mediating age-associated changes in molecular circadian rhythms (main experiment) 112 samples shares age-associated
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.