Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 6-month old mouse brain hippocampus tissue ± JAK1/3 inhibition with tofacitinib
RNA-seq (gene expression) · mouse · 34 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
- 34 samples: 8 conditions, mostly with about 5 replicates eachGroups 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 GSE272694_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 PRJNA1137968 and SRA study SRP521097. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 34 samples.
How we read this: 8 replicated groups read from 34 sample titles; they account for 34 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.
- GSM8409376 HP_WT_Sham_1 HP_WT_Sham
- GSM8409377 HP_WT_Sham_2 HP_WT_Sham
- GSM8409378 HP_WT_Sham_3 HP_WT_Sham
- GSM8409379 HP_WT_Sham_4 HP_WT_Sham
- GSM8409380 HP_WT_Sham_5 HP_WT_Sham
- GSM8409381 HP_WT_Tofa_1 HP_WT_Tofa
- GSM8409382 HP_WT_Tofa_2 HP_WT_Tofa
- GSM8409383 HP_WT_Tofa_3 HP_WT_Tofa
- GSM8409384 HP_WT_Tofa_4 HP_WT_Tofa
- GSM8409385 HP_WT_Tofa_5 HP_WT_Tofa
- GSM8409386 HP_5xFAD_Sham_1 HP_5xFAD_Sham
- GSM8409387 HP_5xFAD_Sham_2 HP_5xFAD_Sham
- GSM8409388 HP_5xFAD_Sham_3 HP_5xFAD_Sham
- GSM8409389 HP_5xFAD_Sham_4 HP_5xFAD_Sham
- GSM8409390 HP_5xFAD_Tofa_1 HP_5xFAD_Tofa
- GSM8409391 HP_5xFAD_Tofa_2 HP_5xFAD_Tofa
- GSM8409392 HP_5xFAD_Tofa_4 HP_5xFAD_Tofa
- GSM8409393 HP_5xFAD_Tofa_5 HP_5xFAD_Tofa
- GSM8409394 HP_5xFAD_Tofa_6 HP_5xFAD_Tofa
- GSM8409395 HP_Dp16_Sham_1 HP_Dp16_Sham
- GSM8409396 HP_Dp16_Sham_2 HP_Dp16_Sham
- GSM8409397 HP_Dp16_Sham_3 HP_Dp16_Sham
- GSM8409398 HP_Dp16_Tofa_1 HP_Dp16_Tofa
- GSM8409399 HP_Dp16_Tofa_2 HP_Dp16_Tofa
- GSM8409400 HP_Dp16_Tofa_3 HP_Dp16_Tofa
- GSM8409401 HP_Dp16_Tofa_4 HP_Dp16_Tofa
- GSM8409402 HP_Dp16_Tofa_5 HP_Dp16_Tofa
- GSM8409403 HP_5xFAD_Dp16_Sham_1 HP_5xFAD_Dp16_Sham
- GSM8409404 HP_5xFAD_Dp16_Sham_2 HP_5xFAD_Dp16_Sham
- GSM8409405 HP_5xFAD_Dp16_Sham_4 HP_5xFAD_Dp16_Sham
- GSM8409406 HP_5xFAD_Dp16_Tofa_1 HP_5xFAD_Dp16_Tofa
- GSM8409407 HP_5xFAD_Dp16_Tofa_2 HP_5xFAD_Dp16_Tofa
- GSM8409408 HP_5xFAD_Dp16_Tofa_3 HP_5xFAD_Dp16_Tofa
- GSM8409409 HP_5xFAD_Dp16_Tofa_4 HP_5xFAD_Dp16_Tofa
- 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 6-month, jak1, tofacitinib, inhibition, institute, trisomy, rna-seq
- GSE272567 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from adult mouse brain hippocampus 17 samples shares hippocampus, institute, trisomy, rna-seq
- 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
- GSE272691 Crnic Institute - Trisomy 21 Model Atlas: PolyA RNA-seq from 9-month old mouse brain hippocampus tissue 16 samples shares hippocampus, institute, trisomy, rna-seq
- GSE230771 Differential Effects of JAK1 vs. JAK2 Inhibition in Mouse Models of Hemophagocytic Lymphohistiocytosis 30 samples shares jak1, inhibition
- GSE304588 Revealing an unconventional JAK1/2-STAT3 branch in macrophage IFNγ signaling [RNA-Seq] 30 samples shares jak1, rna-seq
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares hippocampus, rna-seq
- GSE292224 Distinct molecular mechanisms of stress habituation in the mouse hippocampus [bulk RNA-seq] 190 samples shares hippocampus, rna-seq
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.