Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 9-month old mouse brain hippocampus tissue
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 4 × HP_WT vs 4 × HP_Dp16 vs 4 × HP_5xFAD-Dp16 vs 4 × HP_5xFADGroups 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
- Interferon signaling modulates Down syndrome-associated Alzheimer's disease pathology in a mouse modeliScience · 2025
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 GSE272691_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 PRJNA1137971 and SRA study SRP521103. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8409320 HP_WT_2 HP_WT
- GSM8409321 HP_WT_4 HP_WT
- GSM8409322 HP_WT_7 HP_WT
- GSM8409323 HP_WT_16 HP_WT
- GSM8409324 HP_Dp16_3 HP_Dp16
- GSM8409325 HP_Dp16_5 HP_Dp16
- GSM8409326 HP_Dp16_12 HP_Dp16
- GSM8409327 HP_Dp16_14 HP_Dp16
- GSM8409328 HP_5xFAD-Dp16_1 HP_5xFAD-Dp16
- GSM8409329 HP_5xFAD-Dp16_8 HP_5xFAD-Dp16
- GSM8409330 HP_5xFAD-Dp16_9 HP_5xFAD-Dp16
- GSM8409331 HP_5xFAD-Dp16_11 HP_5xFAD-Dp16
- GSM8409332 HP_5xFAD_6 HP_5xFAD
- GSM8409333 HP_5xFAD_10 HP_5xFAD
- GSM8409334 HP_5xFAD_13 HP_5xFAD
- GSM8409335 HP_5xFAD_15 HP_5xFAD
- GSE272690 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 9-month old mouse brain cortex tissue 16 samples shares 9-month, institute, trisomy, rna-seq, crnic, polya, brain
- GSE272694 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 6-month old mouse brain hippocampus tissue ± JAK1/3 inhibition with tofacitinib 34 samples shares hippocampus, institute, trisomy, rna-seq, crnic, polya, brain
- GSE272567 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from adult mouse brain hippocampus 17 samples shares hippocampus, institute, trisomy, rna-seq, crnic, polya, brain
- GSE272663 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 5-month old mouse brain hippocampus tissue 16 samples shares hippocampus, institute, trisomy, rna-seq, crnic, polya, brain
- GSE272693 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 6-month old mouse brain cortex tissue ± JAK1/3 inhibition with tofacitinib 34 samples shares institute, trisomy, rna-seq, crnic, polya, brain
- GSE272568 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from adult mouse brain cortex 18 samples shares institute, trisomy, rna-seq, crnic, polya, brain
- GSE272662 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 5-month old mouse brain cortex tissue 16 samples shares institute, trisomy, rna-seq, crnic, polya, brain
- GSE296500 Crnic Institute Human Trisome Project - Trisomy 21 Model Atlas: PolyA RNA-seq from adult WT and Dp16 mouse liver tissue ± high fat diet 45 samples shares institute, trisomy, rna-seq, crnic, polya
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.