PTPN2 deficiency amplifies interferon signaling and impairs functional maturation of human stem cell-derived islets [BulkRNA_Stemcells]
Single-cell RNA-seq · human · 12 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
- 12 samples: 12 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.
- Paper
- PTPN2 deficiency amplifies inflammatory signalling and impairs functional maturation of human stem cell-derived isletsStem cell research & therapy · 2026
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 GSE304008_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 PRJNA1298754 and SRA study SRP604531. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 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.
- GSM9140758 VVA1_H1WT_CTL_N1
- GSM9140759 VVA2_H1N2_CTL_N1
- GSM9140760 VVA3_H1WT_Cyto_N1
- GSM9140761 VVA4_H1N2_Cyto_N1
- GSM9140762 VVA5_H1WT_CTL_N2
- GSM9140763 VVA6_H1N2_CTL_N2
- GSM9140764 VVA7_H1WT_Cyto_N2
- GSM9140765 VVA8_H1N2_Cyto_N2
- GSM9140766 VVA9_H1WT_CTL_N3
- GSM9140767 VVA10_H1N2_CTL_N3
- GSM9140768 VVA11_H1WT_Cyto_N3
- GSM9140769 VVA12_H1WT_Cyto_N3
- GSE235161 Mitochondrial NAD+ deficiency in vascular smooth muscle impairs collagen III turnover to trigger thoracic and abdominal aortic aneurysm 42 samples shares deficiency, impairs
- GSE249826 Human-induced pluripotent Stem Cell-Derived Hepatic Stellate Cells in Liver Organoids: Maturation Promotion and Essential Role in Vascularization 26 samples shares cell-derived, maturation
- GSE272740 SUCLG1-deficiency causes hypersuccinylation and impairs leukemia development [RNA-seq] 23 samples shares deficiency, impairs
- GSE268981 Graphene-polymer nanofibers enable optically induced electrical maturation in stem cell-derived cardiomyocytes and brain organoids 23 samples shares cell-derived, maturation
- GSE283776 Human stem cell-derived GABAergic interneuron development reveals early emergence of subtype diversity followed by gradual electrochemical maturation [snRNA-seq] 19 samples shares cell-derived, maturation
- GSE335283 Hemin Impairs Interferon Signaling in Periodontal Cells 12 samples shares interferon, impairs
- GSE269408 SCGB2A1 deficiency impairs endometrial stromal cell decidualization by decreasing CDK3-mediated proliferation in patients with recurrent implantation failure 10 samples shares deficiency, impairs
- GSE272123 PTPN23-dependent ESCRT machinery functions as a cell death checkpoint in restraining multiple cell death pathways 76 samples shares ptpn2
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.