Sustained NF-kB activation allows mutant alveolar stem cells to co-opt a regeneration program for tumor initiation
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 9 conditions, mostly in duplicateGroups 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
- Sustained NF-κB activation allows mutant alveolar stem cells to co-opt a regeneration program for tumor initiationCell stem cell · 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 GSE247505_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 PRJNA1039244 and SRA study SRP471324. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 20 sample titles; they account for 18 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.
- GSM7890829 Expt1_Confetti RFP
- GSM7890830 Expt1_Confetti YFP
- GSM7890831 Expt1_4d RFP r1 Expt1_4d RFP
- GSM7890832 Expt1_4d RFP r2 Expt1_4d RFP
- GSM7890833 Expt1_4d YFP r1 Expt1_4d YFP
- GSM7890834 Expt1_4d YFP r2 Expt1_4d YFP
- GSM7890835 Expt1_2w RFP r1 Expt1_2w RFP
- GSM7890836 Expt1_2w RFP r2 Expt1_2w RFP
- GSM7890837 Expt1_2w YFP r1 Expt1_2w YFP
- GSM7890838 Expt1_2w YFP r2 Expt1_2w YFP
- GSM7890839 Expt2_Confetti RFP r1 Expt2_Confetti RFP
- GSM7890840 Expt2_Confetti RFP r2 Expt2_Confetti RFP
- GSM7890841 Expt2_2w het RFP r1 Expt2_2w het RFP
- GSM7890842 Expt2_2w het RFP r2 Expt2_2w het RFP
- GSM7890843 Expt2_2w hom RFP r1 Expt2_2w hom RFP
- GSM7890844 Expt2_2w hom RFP r2 Expt2_2w hom RFP
- GSM7890845 Expt2_12w het RFP r1 Expt2_12w het RFP
- GSM7890846 Expt2_12w het RFP r2 Expt2_12w het RFP
- GSM7890847 Expt2_12w hom RFP r1 Expt2_12w hom RFP
- GSM7890848 Expt2_12w hom RFP r2 Expt2_12w hom RFP
- GSE247504 Sustained NF-kB activation allows mutant alveolar stem cells to co-opt a regeneration program for tumor initiation [Expt2] 10 samples shares regeneration, activation, initiation, sustained, alveolar, program, allows, mutant
- GSE327565 Sustained Yap/Taz activation promotes aberrant alveolar epithelial cell differentiation and drives persistent fibrotic remodeling 14 samples shares activation, sustained, alveolar
- GSE99296 α-ketoglutarate orchestrates macrophage activation through metabolic and epigenetic reprogramming 18 samples shares activation, program
- GSE324502 Bioinspired, Mitochondria-targeted Single-atom Nanozyme Enhances Bone Regeneration by Reprogramming Stem Cell Energy Metabolism 12 samples shares regeneration, program
- GSE268172 Stable maintenance of MERVL-positive embryonic stem cells reveals sustained transcriptional programs and enhancer remodeling 45 samples shares sustained, program
- GSE342096 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence 37 samples shares activation, program
- GSE331176 Phagosome-mediated activation of STING by purine and pyrimidine-based bacterial cyclic dinucleotides 380 samples shares activation
- GSE267938 Functional optic tract rewiring via subtype- and target-specific axonal regeneration and presynaptic activity enhancement 256 samples shares regeneration
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.