Comparison of iPSC-derived alveolar epithelial cell culture methods (B2-3 SFTPC-GFP reporter iPSCs) and compound treatment in the alveolar epithelial spheroids (B2-3-dual-42-7 SFTPC-GFP AGER-mCherryHiBiT reporter iPSCs)
RNA-seq (gene expression) · human · 24 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
- 24 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
- Screening of factors inducing alveolar type 1 epithelial cells using human pluripotent stem cellsStem cell reports · 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 GSE241337_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 PRJNA1007699 and SRA study SRP456264. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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.
- GSM7726229 CPMhigh_LungProgenitor_1 CPMhigh_LungProgenito
- GSM7726230 CPMhigh_LungProgenitor_2 CPMhigh_LungProgenito
- GSM7726231 CPMhigh_LungProgenitor_3 CPMhigh_LungProgenito
- GSM7726232 FD-AO_EpCAM+_1 FD-AO_EpCAM+
- GSM7726233 FD-AO_EpCAM+_2 FD-AO_EpCAM+
- GSM7726234 FD-AO_EpCAM+_3 FD-AO_EpCAM+
- GSM7726235 FF-AO_1 FF-AO
- GSM7726236 FF-AO_2 FF-AO
- GSM7726238 FF-AO_3 FF-AO
- GSM7726239 On-Gel_1 On-Gel
- GSM7726240 On-Gel_2 On-Gel
- GSM7726241 On-Gel_3 On-Gel
- GSM7726463 DMSO_1 DMSO
- GSM7726464 DMSO_2 DMSO
- GSM7726465 DMSO_3 DMSO
- GSM7726466 LATS-IN-1_1 LATS-IN-1
- GSM7726467 LATS-IN-1_2 LATS-IN-1
- GSM7726468 LATS-IN-1_3 LATS-IN-1
- GSM7726469 BAY1125976_1 BAY1125976
- GSM7726470 BAY1125976_2 BAY1125976
- GSM7726471 BAY1125976_3 BAY1125976
- GSM7726472 LATS-IN-1+BAY1125976_1 LATS-IN-1+BAY1125976
- GSM7726473 LATS-IN-1+BAY1125976_2 LATS-IN-1+BAY1125976
- GSM7726474 LATS-IN-1+BAY1125976_3 LATS-IN-1+BAY1125976
- GSE276364 Comparison of iPSC-derived human intestinal epithelial cells with Caco-2 cells and human in vivo data after exposure to Lactiplantibacillus plantarum WCFS1 36 samples shares ipsc-derived, comparison, epithelial
- GSE255658 Effects of lipopolysaccharide (LPS) or interferon gamma (IFNy) treatment on wild type or PILRA knock-out iPSC-derived human microglia after 24 hours 30 samples shares ipsc-derived, treatment
- GSE339602 Single-cell RNA sequencing of human iPSC-derived forebrain organoids following amyloid-β42 treatment, microglia co-culture, and maraviroc treatment 16 samples shares ipsc-derived, treatment
- GSE275981 Gene expression profile at single cell level of iPSC-derived and primary thymic epithelial cells (TECs) 16 samples shares ipsc-derived, epithelial
- GSE295280 High throughput screening of patient's iPSC-derived neurons identifies gut microbial metabolites as a potential treatment for Alzheimer's disease. 11 samples shares ipsc-derived, treatment
- GSE242184 In vitro pigmentation of human iPSC-derived retinal pigment epithelium cells is not indicative of their quality for cell transplantation 4022 samples shares ipsc-derived
- GSE295447 On target: Transcriptomic analysis of 12 human iPSC-derived cell phenotypes shows precision in an extensive pharmacological investigation [set 2] 840 samples shares ipsc-derived
- 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 ipsc-derived
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.