Chronic and acute exposure to rotenone lead to distinct Parkinson’s disease-related phenotypes in human iPSC-derived peripheral neurons
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: 14 distinct titles, 1 of them repeatedGroups 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
- Chronic and acute exposure to rotenone reveals distinct Parkinson's disease-related phenotypes in human iPSC-derived peripheral neuronsFree radical biology & medicine · 2024
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 GSE245060_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 PRJNA1026881 and SRA study SRP465615. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 15 sample titles: 14 distinct titles with little repetition. 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.
- GSM7835447 D42-WP3-CTR-25nM_S1
- GSM7835448 D42-WP3-CTR-NT_S2
- GSM7835449 D56-WP3-CTR-1nM_S3
- GSM7835450 D56-WP3-CTR-NT_S4
- GSM7835451 D38-002-iCTR-1nM_S5
- GSM7835452 D38-002-CTR-25nM_S6
- GSM7835453 D38-002-CTR-NT_S7
- GSM7835454 D38-WP3-CTR-25nM_S8
- GSM7835455 D38-WP3-CTR-NT_S9
- GSM7835456 D50-WP3-CTR-1nM_S10
- GSM7835457 D50-WP3-CTR-NT_S11
- GSM7835458 D42-WP3-CTR-25nM_S12
- GSM7835459 D42-00iCTR-NT_S13
- GSM7835460 D56-00iCTR-1nM_S14
- GSM7835461 D56-00iCTR-NT_S15
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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.