Bulk RNA sequencing analysis of a iPSC-derived neurons, microglia and astrocytes models of mitochondrial unfolded protein response (UPRmt) activation.
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 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.
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 GSE274283_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 PRJNA1145868 and SRA study SRP524960. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 9 samples read as cases, 9 as controls.
How we read this: 6 replicated groups read from 18 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.
- GSM8446853 Astrocyte control. Replicate 1 Astrocyte control
- GSM8446854 Astrocyte control. Replicate 2 Astrocyte control
- GSM8446855 Astrocyte control. Replicate 3 Astrocyte control
- GSM8446856 Astrocyte drug treated. Replicate 1 Astrocyte drug treated
- GSM8446857 Astrocyte drug treated. Replicate 2 Astrocyte drug treated
- GSM8446858 Astrocyte drug treated. Replicate 3 Astrocyte drug treated
- GSM8446859 Microglia control. Replicate 1 Microglia control
- GSM8446860 Microglia control. Replicate 2 Microglia control
- GSM8446861 Microglia control. Replicate 3 Microglia control
- GSM8446862 Microglia drug treated. Replicate 1 Microglia drug treated
- GSM8446863 Microglia drug treated. Replicate 2 Microglia drug treated
- GSM8446864 Microglia drug treated. Replicate 3 Microglia drug treated
- GSM8446865 Neurons control. Replicate 1 Neurons control
- GSM8446866 Neurons control. Replicate 2 Neurons control
- GSM8446867 Neurons control. Replicate 3 Neurons control
- GSM8446868 Neurons drug treated. Replicate 1 Neurons drug treated
- GSM8446869 Neurons drug treated. Replicate 2 Neurons drug treated
- GSM8446870 Neurons drug treated. Replicate 3 Neurons drug treated
- GSE254732 Inhibition of PCSK9 with evolocumab modulates lipoproteins and monocyte activation in high-risk ASCVD subjects 215 samples shares activation, protein
- GSE299997 Integrated profiling of iPSC-derived motor neurons carrying C9orf72, FUS, TARDBP, or SOD1 mutations 156 samples shares ipsc-derived, neurons
- GSE282668 TGF-β signaling promotes astroglial activation and TDP-43 proteinopathy in organoid models of frontotemporal lobar degeneration 54 samples shares activation, protein
- GSE293037 Bulk transcriptome analysis of wildtype, TREM2 knockout, GPR34 knock-out or TREM2/GPR34 double knock-out iPSC-derived human microglia treated either with PBS or myelin. 32 samples shares ipsc-derived, microglia
- GSE289881 Exploring fibroblast activation protein as an early biomarker in chronic lung allograft dysfunction 10 samples shares activation, protein
- GSE311573 Disordered protein LAT encodes relative levels of signaling pathways in T cell activation 62 samples shares activation, protein
- GSE261897 Disruption of deoxynucleotide biosynthesis leads to RASproto-oncogene activation and perturbation of mitochondrial metabolism. 42 samples shares mitochondrial, activation
- GSE311572 Disordered protein LAT encodes relative levels of signaling pathways in T cell activation [Perturb-CITE-seq] 22 samples shares activation, protein
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.