Inducible XIST-mediated trisomy 21 correction uncovers a USP16-p16 senescence axis driving epileptogenesis in Down syndrome
Single-nucleus RNA-seq · human · 45 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 45 samples: 45 samples, each with a distinct title — no replicated groupsGroups 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.
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 GSE322851_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1431945 and SRA study SRP680877. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 15 samples read as cases, 15 as controls.
How we read this: Read from 45 sample titles: 45 distinct titles with little repetition. 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.
- GSM9560197 Female Down syndrome 1,NPC
- GSM9560198 Female Down syndrome 2,NPC
- GSM9560199 Female Down syndrome 3,NPC
- GSM9560200 Female Control 1,NPC
- GSM9560201 Female Control 2,NPC
- GSM9560202 Female Control 3,NPC
- GSM9560203 Female Down syndrome with XIST,doxycycline-treated1,NPC
- GSM9560204 Female Down syndrome with XIST,doxycycline-treated2,NPC
- GSM9560205 Female Down syndrome with XIST,doxycycline-treated3,NPC
- GSM9560206 Female Control 1,iPSC [E250027119]
- GSM9560207 Female Control 2,iPSC [E250027119]
- GSM9560208 Female Control 3,iPSC [E250027119]
- GSM9560209 Female Control 4,iPSC [E250027119]
- GSM9560210 Female Control 5,iPSC [E250027119]
- GSM9560211 Female Control 6,iPSC [E250027119]
- GSM9560212 Female Down syndrome 1,iPSC [E250027119]
- GSM9560213 Female Down syndrome 2,iPSC [E250027119]
- GSM9560214 Female Down syndrome 3,iPSC [E250027119]
- GSM9560215 Female Down syndrome 4,iPSC [E250027119]
- GSM9560216 Female Down syndrome 5,iPSC [E250027119]
- GSM9560217 Female Down syndrome 6,iPSC [E250027119]
- GSM9560218 Female Down syndrome with XIST,doxycycline-treated1,iPSC [E250027119]
- GSM9560219 Female Down syndrome with XIST,doxycycline-treated2,iPSC [E250027119]
- GSM9560220 Female Down syndrome with XIST,doxycycline-treated3,iPSC [E250027119]
- GSM9560221 Female Down syndrome with XIST,doxycycline-treated4,iPSC [E250027119]
- GSM9560222 Female Down syndrome with XIST,doxycycline-treated5,iPSC [E250027119]
- GSM9560223 Female Down syndrome with XIST,doxycycline-treated6,iPSC [E250027119]
- GSM9560224 Female Control 1,iPSC [E250027128]
- GSM9560225 Female Control 2,iPSC [E250027128]
- GSM9560226 Female Control 3,iPSC [E250027128]
- GSM9560227 Female Control 4,iPSC [E250027128]
- GSM9560228 Female Control 5,iPSC [E250027128]
- GSM9560229 Female Control 6,iPSC [E250027128]
- GSM9560230 Female Down syndrome 1,iPSC [E250027128]
- GSM9560231 Female Down syndrome 2,iPSC [E250027128]
- GSM9560232 Female Down syndrome 3,iPSC [E250027128]
- GSM9560233 Female Down syndrome 4,iPSC [E250027128]
- GSM9560234 Female Down syndrome 5,iPSC [E250027128]
- GSM9560235 Female Down syndrome 6,iPSC [E250027128]
- GSM9560236 Female Down syndrome with XIST,doxycycline-treated1,iPSC [E250027128]
+ 5 more — browse all 45 samples with per-sample file links →
- GSE324211 Inducible XIST-mediated trisomy 21 correction uncovers a USP16-p16 senescence axis driving epileptogenesis in Down syndrome [scRNA-Seq] 4 samples shares usp16-p16, epileptogenesis, xist-mediated, correction, senescence, inducible, uncovers, trisomy
- GSE226019 Restored glyoxylate metabolism in induced-hepatocytes after CRISPR/Cas-mediated AGXT gene correction and direct cell reprogramming of Primary Hyperoxaluria Type 1 fibroblasts 39 samples shares correction
- GSE262163 MEG3 Upregulation in Myotonic Dystrophy and Its Correction by Antisense Conjugates Targeting Disease-Causing Mutations [mRNA-seq] 24 samples shares correction
- GSE270332 Identification and Correction of Time-Series Transcriptomic Anomalies[K562_timeseries] 24 samples shares correction
- GSE272233 Correction of Exon 2, Exon 2-9 and Exons 8-9 duplications in DMD patient myogenic cells by a Single CRISPR/Cas9 system 21 samples shares correction
- GSE307482 Functional correction and genome integrity with duplex base editing of β-thalassemic hematopoietic stem cells 15 samples shares correction
- GSE285209 iPSC data for the paper "Correction of dysregulated lipid metabolism normalizes gene expression in oligodendrocytes and prolongs lifespan in female poly-GA C9orf72 mouse model" 15 samples shares correction
- GSE302633 Lentiviral-mediated phenotypic correction of type 1 and type 2 ABCA3 pathogenic variants 10 samples shares correction
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.