Hnf1a mutation in endocrine pancreas affect cell function and identity
RNA-seq (gene expression) · mouse · 11 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
- 11 samples: 7 × WT pancreatic cells vs 4 × Hnf1a flox pancreatic cellsGroups 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 GSE193323_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 PRJNA795792 and SRA study SRP354142. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 2 replicated groups read from 11 sample titles; they account for 11 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.
- GSM5792219 WT pancreatic cells 1 WT pancreatic cells
- GSM5792220 WT pancreatic cells 2 WT pancreatic cells
- GSM5792221 WT pancreatic cells 3 WT pancreatic cells
- GSM5792222 WT pancreatic cells 4 WT pancreatic cells
- GSM5792223 WT pancreatic cells 5 WT pancreatic cells
- GSM5792224 WT pancreatic cells 6 WT pancreatic cells
- GSM5792225 WT pancreatic cells 7 WT pancreatic cells
- GSM5792226 Hnf1a flox pancreatic cells 1 Hnf1a flox pancreatic c…
- GSM5792227 Hnf1a flox pancreatic cells 2 Hnf1a flox pancreatic c…
- GSM5792228 Hnf1a flox pancreatic cells 3 Hnf1a flox pancreatic c…
- GSM5792229 Hnf1a flox pancreatic cells 4 Hnf1a flox pancreatic c…
- GSE193327 Hnf1a mutation in insulin producing beta-cells affect cell function and identity in adult mice 22 samples shares hnf1a, mutation, identity, affect
- GSE267688 Autism-associated mutations in Kdm6b affect its role as a chromatin regulator in brain development 20 samples shares mutation, affect
- GSE317471 Single-cell analysis of the progeric vascular wall reveals progressive cell-type specific dysfunction and accumulation of somatic mutations 30 samples shares mutation
- GSE215960 Subclonal evolution revealed by single-cell profiles of expressed mutations identifies adaptation mechanisms to immunotherapy in melanoma [scRNA-seq] 192 samples shares mutation
- GSE239316 Single-cell transcriptomic analysis reveals that inflammation drives the unfolded protein response during endocrine aging in mice 24 samples shares endocrine
- GSE269251 Ehmt2 Inactivation in Pancreatic Epithelial Cells Shapes the Transcriptional Landscape and Inflammation Response of the Whole Pancreas [RNA-seq] 22 samples shares pancreas
- GSE256180 Neuroendocrine cells initiate protective upper airway reflexes 20 samples shares endocrine
- GSE294945 Mechanistic basis for protection against fatty liver disease by CIDEB loss-of-function mutations 20 samples shares mutation
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.