Deciphering the functional impact of Alzheimer’s Disease-associated variants in resting and proinflammatory immune cells
RNA-seq (gene expression) · human · 192 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
- 192 samples: 92 conditions, mostly in duplicateGroups 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.
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 GSE300844_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 PRJNA1282188 and SRA study SRP523959. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 36 samples read as cases, 44 as controls.
How we read this: 92 replicated groups read from 192 sample titles; they account for 184 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.
- GSM8438711 Replicate 1 Control RNA seq rep 1 Replicate 1 Control RNA…
- GSM8438712 Replicate 1 Control RNA seq rep 2 Replicate 1 Control RNA…
- GSM8438713 Replicate 1 Treated RNA seq rep 1 Replicate 1 Treated RNA…
- GSM8438714 Replicate 1 Treated RNA seq rep 2 Replicate 1 Treated RNA…
- GSM8438715 Replicate 2 Control RNA seq rep 1 Replicate 2 Control RNA…
- GSM8438716 Replicate 2 Control RNA seq rep 2 Replicate 2 Control RNA…
- GSM8438717 Replicate 2 Treated RNA seq rep 1 Replicate 2 Treated RNA…
- GSM8438718 Replicate 2 Treated RNA seq rep 2 Replicate 2 Treated RNA…
- GSM8438719 Replicate 3 Control RNA seq rep 1 Replicate 3 Control RNA…
- GSM8438720 Replicate 3 Control RNA seq rep 2 Replicate 3 Control RNA…
- GSM8438721 Replicate 3 Treated RNA seq rep 1 Replicate 3 Treated RNA…
- GSM8438722 Replicate 3 Treated RNA seq rep 2 Replicate 3 Treated RNA…
- GSM8438723 Replicate 4 Control RNA seq rep 1 Replicate 4 Control RNA…
- GSM8438724 Replicate 4 Control RNA seq rep 2 Replicate 4 Control RNA…
- GSM8438725 Replicate 5 Control RNA seq rep 1 Replicate 5 Control RNA…
- GSM8438726 Replicate 5 Control RNA seq rep 2 Replicate 5 Control RNA…
- GSM8438727 Replicate 5 Treated RNA seq rep 1 Replicate 5 Treated RNA…
- GSM8438728 Replicate 5 Treated RNA seq rep 2 Replicate 5 Treated RNA…
- GSM8438729 Replicate 6 Control RNA seq rep 1 Replicate 6 Control RNA…
- GSM8438730 Replicate 6 Control RNA seq rep 2 Replicate 6 Control RNA…
- GSM8438731 Replicate 6 Treated RNA seq rep 1 Replicate 6 Treated RNA…
- GSM8438732 Replicate 6 Treated RNA seq rep 2 Replicate 6 Treated RNA…
- GSM8438733 Replicate 7 Control RNA seq rep 1 Replicate 7 Control RNA…
- GSM8438734 Replicate 7 Control RNA seq rep 2 Replicate 7 Control RNA…
- GSM8438735 Replicate 7 Treated RNA seq rep 1 Replicate 7 Treated RNA…
- GSM8438736 Replicate 7 Treated RNA seq rep 2 Replicate 7 Treated RNA…
- GSM8438737 Replicate 8 Control RNA seq rep 1 Replicate 8 Control RNA…
- GSM8438738 Replicate 8 Control RNA seq rep 2 Replicate 8 Control RNA…
- GSM8438739 Replicate 8 Treated RNA seq rep 1 Replicate 8 Treated RNA…
- GSM8438740 Replicate 8 Treated RNA seq rep 2 Replicate 8 Treated RNA…
- GSM8438741 Replicate 9 Control RNA seq rep 1 Replicate 9 Control RNA…
- GSM8438742 Replicate 9 Control RNA seq rep 2 Replicate 9 Control RNA…
- GSM8438743 Replicate 9 Treated RNA seq rep 1 Replicate 9 Treated RNA…
- GSM8438744 Replicate 9 Treated RNA seq rep 2 Replicate 9 Treated RNA…
- GSM8438745 Replicate 10 Treated RNA seq rep 1 Replicate 10 Treated RN…
- GSM8438746 Replicate 10 Treated RNA seq rep 2 Replicate 10 Treated RN…
- GSM8438747 Replicate 11 Treated RNA seq rep 1 Replicate 11 Treated RN…
- GSM8438748 Replicate 11 Treated RNA seq rep 2 Replicate 11 Treated RN…
- GSM8438749 Replicate 12 Control RNA seq rep 1 Replicate 12 Control RN…
- GSM8438750 Replicate 12 Control RNA seq rep 2 Replicate 12 Control RN…
+ 152 more — browse all 192 samples with per-sample file links →
- GSE279298 Comprehensive identification of coronary artery disease-associated variants regulating vascular smooth muscle cell gene expression [CUT&RUN] 48 samples shares disease-associated, variants
- GSE327021 Ubiquitin-Proteasome System Dysregulation in Alzheimer's Disease Impacts Protein Abundance 24 samples shares alzheimer, impact
- GSE293119 Integration of Alzheimer’s GWAS, 3D genomics, and single-cell CRISPRi non-coding screen implicates causal variants in a microglial enhancer regulating TSPAN14. [RNA-Seq] 18 samples shares alzheimer, variants
- GSE311545 Alzheimer’s Disease-Associated circPDE4B Interacts with GEMIN5 to Regulate Translation 17 samples shares disease-associated, alzheimer
- GSE276684 Deciphering shared molecular dysregulation across Parkinson's Disease variants using a multi-modal network-based data integration and analysis 12 samples shares deciphering, variants
- GSE332551 Disease-associated RNA and protein signatures in iPSC-derived microglia model of Alzheimer’s disease 12 samples shares disease-associated, alzheimer
- GSE270387 Single cell profiling of peripheral blood mononuclear cells in diverse men with prostate cancer reveals lethal disease-associated immune signatures 165 samples shares disease-associated
- GSE280720 Functional characterization of Central Nervous System (CNS) and peripheral immune responses in Alzheimer's Disease after Bacillus Calmette Guerin (BCG) vaccination in older adults. 64 samples shares alzheimer
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.