Parkinson Disease Frontal Cortex Transcriptomic analysis
RNA-seq (gene expression) · human · 15 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
- 15 samples: 8 × Frontal_cortex, Parkinson disease, vs 7 × Frontal_cortex, Control,Groups 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.
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 GSE156928_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 PRJNA659523 and SRA study SRP278867. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 8 samples read as cases, 7 as controls.
How we read this: 2 replicated groups read from 15 sample titles; they account for 15 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.
- GSM4748331 Frontal_cortex, Parkinson disease, replicate 1 Frontal_cortex, Parkins…
- GSM4748332 Frontal_cortex, Parkinson disease, replicate 2 Frontal_cortex, Parkins…
- GSM4748333 Frontal_cortex, Parkinson disease, replicate 3 Frontal_cortex, Parkins…
- GSM4748334 Frontal_cortex, Parkinson disease, replicate 4 Frontal_cortex, Parkins…
- GSM4748335 Frontal_cortex, Parkinson disease, replicate 5 Frontal_cortex, Parkins…
- GSM4748336 Frontal_cortex, Control, replicate 1 Frontal_cortex, Control,
- GSM4748337 Frontal_cortex, Parkinson disease, replicate 6 Frontal_cortex, Parkins…
- GSM4748338 Frontal_cortex, Control, replicate 2 Frontal_cortex, Control,
- GSM4748339 Frontal_cortex, Control, replicate 3 Frontal_cortex, Control,
- GSM4748340 Frontal_cortex, Control, replicate 4 Frontal_cortex, Control,
- GSM4748341 Frontal_cortex, Control, replicate 5 Frontal_cortex, Control,
- GSM4748342 Frontal_cortex, Control, replicate 6 Frontal_cortex, Control,
- GSM4748343 Frontal_cortex, Parkinson disease, replicate 7 Frontal_cortex, Parkins…
- GSM4748344 Frontal_cortex, Parkinson disease, replicate 8 Frontal_cortex, Parkins…
- GSM4748345 Frontal_cortex, Control, replicate 7 Frontal_cortex, Control,
- GSE264050 Parkinson's disease (PD) genetic asymmetry in neuronal nuclei from paired hemisphere samples of prefrontal cortex 87 samples shares parkinson, frontal, cortex
- GSE264549 Parkinson's disease (PD) genetic asymmetry in neuronal nuclei from paired hemisphere samples of prefrontal cortex (ATAC-Seq) 69 samples shares parkinson, frontal, cortex
- GSE285831 Frontal cortex pyramidal neuron expression profiles differentiate the prodromal stage from progressive degeneration across the Alzheimer’s disease spectrum 20 samples shares frontal, cortex
- GSE251939 Analysis of microisolated frontal cortex excitatory layer III and V pyramidal neurons reveals a neurodegenerative phenotype in individuals with Down syndrome 82 samples shares frontal, cortex
- GSE256207 Accessible chromatin profiles (ATAC) at single-cell level of human post-mortem brain tissue from the orbitofrontal cortex 92 samples shares frontal, cortex
- GSE254569 Gene expression profiles at single-cell level of human post-mortem brain tissue from the orbitofrontal cortex 92 samples shares frontal, cortex
- GSE174409 Transcriptional alterations in dorsolateral prefrontal cortex and nucleus accumbens implicate neuroinflammation and synaptic remodeling in opioid use disorder 80 samples shares frontal, cortex
- GSE269906 Stereo-seq on human prefrontal cortex from six AD and six normal samples 12 samples shares frontal, cortex
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.