The polymerized protein response (PPR) is activated by genetic variants that polymerize in the ER and is mediated by NFκBp50
RNA-seq (gene expression) · mouse · 34 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
- 34 samples: 6 conditions, mostly with about 6 replicates eachGroups 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 GSE325308_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 PRJNA1439419 and SRA study SRP684906. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 34 samples.
How we read this: 6 replicated groups read from 34 sample titles; they account for 34 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.
- GSM9600322 liver wildtype vehicle 1 liver wildtype vehicle
- GSM9600323 liver wildtype vehicle 2 liver wildtype vehicle
- GSM9600324 liver wildtype vehicle 3 liver wildtype vehicle
- GSM9600325 liver wildtype vehicle 4 liver wildtype vehicle
- GSM9600326 liver wildtype vehicle 5 liver wildtype vehicle
- GSM9600327 liver wildtype vehicle 6 liver wildtype vehicle
- GSM9600328 liver wildtype tnfa 1 liver wildtype tnfa
- GSM9600329 liver wildtype tnfa 2 liver wildtype tnfa
- GSM9600330 liver wildtype tnfa 3 liver wildtype tnfa
- GSM9600331 liver wildtype tnfa 4 liver wildtype tnfa
- GSM9600332 liver wildtype tnfa 5 liver wildtype tnfa
- GSM9600333 liver wildtype tnfa 6 liver wildtype tnfa
- GSM9600334 liver piz vehicle 1 liver piz vehicle
- GSM9600335 liver piz vehicle 2 liver piz vehicle
- GSM9600336 liver piz vehicle 3 liver piz vehicle
- GSM9600337 liver piz vehicle 4 liver piz vehicle
- GSM9600338 liver piz vehicle 5 liver piz vehicle
- GSM9600339 liver piz p50 ko vehicle 1 liver piz p50 ko vehicle
- GSM9600340 liver piz p50 ko vehicle 2 liver piz p50 ko vehicle
- GSM9600341 liver piz p50 ko vehicle 3 liver piz p50 ko vehicle
- GSM9600342 liver piz p50 ko vehicle 4 liver piz p50 ko vehicle
- GSM9600343 liver piz p50 ko vehicle 5 liver piz p50 ko vehicle
- GSM9600344 liver wt vehicle 1 liver wt vehicle
- GSM9600345 liver wt vehicle 2 liver wt vehicle
- GSM9600346 liver wt vehicle 3 liver wt vehicle
- GSM9600347 liver wt vehicle 4 liver wt vehicle
- GSM9600348 liver wt vehicle 5 liver wt vehicle
- GSM9600349 liver wt vehicle 6 liver wt vehicle
- GSM9600350 liver wt tunicamycin 1 liver wt tunicamycin
- GSM9600351 liver wt tunicamycin 2 liver wt tunicamycin
- GSM9600352 liver wt tunicamycin 3 liver wt tunicamycin
- GSM9600353 liver wt tunicamycin 4 liver wt tunicamycin
- GSM9600354 liver wt tunicamycin 5 liver wt tunicamycin
- GSM9600355 liver wt tunicamycin 6 liver wt tunicamycin
- GSE313654 Activated Interferon Signaling Suppresses Age-Dependent Liver Cancer [RNAseq_MycRux] 58 samples shares ppr, activated
- GSE319401 Exercise Mitigates Cardiac Dysfunction Post-MI in Ovariectomized Mice via miR-21/Sox7-Mediated Suppression of Cardiac Fibroblast Activation 24 samples shares ppr, mediated
- GSE220973 Mismatch repair protein MLH1 suppresses replicative stress in BRCA2 deficient breast tumors 23 samples shares ppr, protein
- GSE313646 Activated Interferon Signaling Suppresses Age-Dependent Liver Cancer [RNAseq_Hepatocytes] 19 samples shares ppr, activated
- GSE313644 Activated Interferon Signaling Suppresses Age-Dependent Liver Cancer [RNAseq_WholeLiver] 18 samples shares ppr, activated
- GSE267731 Cell of origin alters myeloid-mediated immunosuppression in lung adenocarcinom 14 samples shares ppr, mediated
- GSE267276 FUS-mediated inhibition of myogenesis by suppressing TNNT1 production [RNA-seq] 12 samples shares ppr, mediated
- GSE252887 Periodic Heat Waves-induced neuronal etiology in the elderly is mediated by Gut-Liver-Brain axis: A Transcriptome Profiling Approach 12 samples shares ppr, mediated
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.