RNA-seq of ISL1 overexpression during islet differentiation.
RNA-seq (gene expression) · human · 21 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
- Homo sapiens (human)
- Samples
- 21 samples: 8 conditions, mostly in triplicateGroups 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
- A stem cell knockout village reveals lineage rewiring and a non-canonical islet cell fate in monogenic diabetesbioRxiv : the preprint server for biology · 2025
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 GSE313800_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 PRJNA1381608 and SRA study SRP655293. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 21 samples.
How we read this: 8 replicated groups read from 21 sample titles; they account for 21 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.
- GSM9375805 ISL1_KO_control_rep_1 ISL1_KO_control
- GSM9375806 ISL1_KO_control_rep_2 ISL1_KO_control
- GSM9375807 ISL1_KO_control_rep_3 ISL1_KO_control
- GSM9375808 ISL1_KO_ISL1_OE_rep_1 ISL1_KO_ISL1_OE
- GSM9375809 ISL1_KO_ISL1_OE_rep_2 ISL1_KO_ISL1_OE
- GSM9375810 ISL1_KO_ISL1_OE_rep_3 ISL1_KO_ISL1_OE
- GSM9375811 PAX6_KO_control_rep_1 PAX6_KO_control
- GSM9375812 PAX6_KO_control_rep_2 PAX6_KO_control
- GSM9375813 PAX6_KO_control_rep_3 PAX6_KO_control
- GSM9375814 PAX6_KO_ISL1_OE_rep_1 PAX6_KO_ISL1_OE
- GSM9375815 PAX6_KO_ISL1_OE_rep_2 PAX6_KO_ISL1_OE
- GSM9375816 PAX6_KO_ISL1_OE_rep_3 PAX6_KO_ISL1_OE
- GSM9375817 PDX1_KO_control_rep_1 PDX1_KO_control
- GSM9375818 PDX1_KO_control_rep_2 PDX1_KO_control
- GSM9375819 PDX1_KO_control_rep_3 PDX1_KO_control
- GSM9375820 PDX1_KO_ISL1_OE_rep_1 PDX1_KO_ISL1_OE
- GSM9375821 PDX1_KO_ISL1_OE_rep_2 PDX1_KO_ISL1_OE
- GSM9375822 WT_control_rep_1 WT_control
- GSM9375823 WT_control_rep_2 WT_control
- GSM9375824 WT_ISL1_OE_rep_1 WT_ISL1_OE
- GSM9375825 WT_ISL1_OE_rep_2 WT_ISL1_OE
- GSE319641 RNA-Seq profiling of pre- and on-treatment tumor samples from breast cancer patients enrolled in the NeoTRIP trial. 401 samples shares rna-seq
- GSE205154 Bulk RNA-Seq gene expression data for 289 primary and metastatic pancreatic ductal adenocarcinoma (PDAC) tumor samples from FFPE blocks. 289 samples shares rna-seq
- GSE309595 Longitudinal Analysis of Multiple Myeloma: Therapeutic Response and Immune Microenvironment Dynamics in the Context of Tumor Heterogeneity [scRNA-seq] 270 samples shares rna-seq
- GSE297742 Bulk RNA-seq of primary tumor biopsy samples from prostate adenocarcinoma patients 234 samples shares rna-seq
- GSE293805 Single nucleus RNA-sequencing atlas of pediatric solid tumors 182 samples shares rna-seq
- GSE251778 Sex-specific and multiomic integration enhance accuracy of peripheral blood biomarkers of major depressive disorder [RNA-Seq] 169 samples shares rna-seq
- GSE253198 Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis [snRNA-seq] 21 samples shares rna-seq
- GSE327707 Sorted bulk RNA-seq profiling of human peripheral blood mononuclear cell populations across diverse in vitro immune stimuli 150 samples shares rna-seq
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.