Vascularized Macrophage-Islet Organoids to Model Immune-Mediated Pancreatic beta cell Pyroptosis upon Viral Infection [scRNAseq.islets]
Single-cell RNA-seq · human · 10 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 10 samples: 9 distinct titles, 1 of them repeatedGroups 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 GSE247806_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 PRJNA1040757 and SRA study SRP472011. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 10 sample titles: 9 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.
- GSM7901012 control-9-mock
- GSM7901013 control-9-SARS-CoV-2
- GSM7901014 control-10-mock
- GSM7901015 control-10-SARS-CoV-2
- GSM7901016 control-10-CVB4
- GSM7901017 control-11-mock
- GSM7901018 control-11-SARS-CoV-2
- GSM7901019 control-12-mock
- GSM7901020 control-12-CVB4-1
- GSM7901021 control-12-CVB4-2
- GSE272460 Transcriptome analysis of pancreatic progenitor organoids (POs) carrying PDAC related mutations, treated with ERK inhibitors and depleted of AP-1 factors 40 samples shares pancreatic, organoids
- GSE263364 Characterization of human pancreatic tissue and organoids reveals subpopulation of intercalated duct cells with progenitor traits 23 samples shares pancreatic, organoids
- GSE235683 Interferons are the key cytokines acting on pancreatic islets in type 1 diabetes 18 samples shares pancreatic, islets
- GSE228801 Patient-derived organoids of pancreatic ductal adenocarcinoma for subtype determination and clinical outcome prediction 14 samples shares pancreatic, organoids
- GSE335464 Integrative single-cell multi-omics profiling of human pancreatic islets identifies T1D-associated genes and regulatory signals [single cell] 28 samples shares pancreatic, islets
- GSE143584 Gene expression from laser capture microdissected epithelium and stroma during pancreatic carcinogenesis 366 samples shares pancreatic
- GSE205154 Bulk RNA-Seq gene expression data for 289 primary and metastatic pancreatic ductal adenocarcinoma (PDAC) tumor samples from FFPE blocks. 289 samples shares pancreatic
- GSE263733 Single-cell transcriptome analysis reveals subtype-specific clonal evolution and microenvironmental changes in liver metastasis of pancreatic adenocarcinoma and their clinical implications 218 samples shares pancreatic
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.