Patchseq Data of T1D Donor Islets vs ND Matched Controls
Single-cell RNA-seq · human · 958 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. 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
- 958 samples: 34 conditions, mostly with about 12 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
- TMEM55A-mediated PI5P signaling regulates α-cell actin depolymerization and glucagon secretionbioRxiv : the preprint server for biology · 2024
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 GSE270484_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 PRJNA1126733 and SRA study SRP515359. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 400 samples.
How we read this: 34 replicated groups read from the first 400 of 958 sample titles; they account for 400 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.
- GSM8343703 A3A1 A3A
- GSM8343704 A3A10 A3A
- GSM8343705 A3A12 A3A
- GSM8343706 A3A2 A3A
- GSM8343707 A3A3 A3A
- GSM8343708 A3A4 A3A
- GSM8343709 A3A5 A3A
- GSM8343710 A3A6 A3A
- GSM8343711 A3A7 A3A
- GSM8343712 A3A8 A3A
- GSM8343713 A3A9 A3A
- GSM8343714 A3B1 A3B
- GSM8343715 A3B10 A3B
- GSM8343716 A3B11 A3B
- GSM8343717 A3B12 A3B
- GSM8343718 A3B2 A3B
- GSM8343719 A3B3 A3B
- GSM8343720 A3B4 A3B
- GSM8343721 A3B5 A3B
- GSM8343722 A3B6 A3B
- GSM8343723 A3B7 A3B
- GSM8343724 A3B8 A3B
- GSM8343725 A3B9 A3B
- GSM8343726 A3C1 A3C
- GSM8343727 A3C10 A3C
- GSM8343728 A3C11 A3C
- GSM8343729 A3C12 A3C
- GSM8343730 A3C2 A3C
- GSM8343731 A3C3 A3C
- GSM8343732 A3C4 A3C
- GSM8343733 A3C5 A3C
- GSM8343734 A3C6 A3C
- GSM8343735 A3C7 A3C
- GSM8343736 A3C8 A3C
- GSM8343737 A3C9 A3C
- GSM8343738 A3D1 A3D
- GSM8343739 A3D10 A3D
- GSM8343740 A3D11 A3D
- GSM8343741 A3D12 A3D
- GSM8343742 A3D2 A3D
+ 918 more — browse all 958 samples with per-sample file links →
- GSE335464 Integrative single-cell multi-omics profiling of human pancreatic islets identifies T1D-associated genes and regulatory signals [single cell] 28 samples shares t1d, islets
- GSE309422 RNAseq analysis of human neutrophil mRNA from adults with SLE and age-matched healthy controls 21 samples shares controls, matched
- GSE261559 Neutrophil transcriptome in community acquired pneumonia and age matched controls 14 samples shares controls, matched
- GSE98793 Gene expression analysis in whole blood samples obtained from donors diagnosed with MDD compared to healthy controls 192 samples shares controls, donor
- GSE215924 Small bowel RNA-seq data from patients with Crohn's disease and patients with colon cancer (non-CD controls) 79 samples shares controls
- GSE300610 Growing iPSC-derived neuronal precursor cells (NPCs) of MT-ATP6 patients and of normal controls under physiological glucose concentrations of 4.5 mM with and without 1 µM or 10 µM Sildenafil for 6 or 24 hours. 192 samples shares controls
- GSE244441 A human-specific microRNA controls the timing of excitatory synaptogenesis (pLNA dataset) 19 samples shares controls
- GSE299393 Single cell RNAseq dataset of MDA-MB-231 xenograft and matched metastasis 17 samples shares matched
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.