Exploration for blood biomarkers of human long non-coding RNAs predicting oxaliplatin-induced chronic neuropathy through iPS cell-derived sensory neuron analysis
RNA-seq (gene expression) · human · 24 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
- 24 samples: 24 samples, each with a distinct title — no replicated groupsGroups 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
- Exploration for Blood Biomarkers of Human Long Non-coding RNAs Predicting Oxaliplatin-Induced Chronic Neuropathy Through iPS Cell-Derived Sensory Neuron AnalysisMolecular neurobiology · 2024
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 GSE290071_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 PRJNA1226145 and SRA study SRP565252. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 24 sample titles: 24 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.
- GSM8805053 Cell1005, Control
- GSM8805054 Cell1231A, Control
- GSM8805055 Cell2490, Control
- GSM8805056 Cell3382, Control
- GSM8805057 Cell3681, Control
- GSM8805058 Cell3686, Control
- GSM8805059 Cell1005, Oxaliplatin
- GSM8805060 Cell1231A, Oxaliplatin
- GSM8805061 Cell2490, Oxaliplatin
- GSM8805062 Cell3382, Oxaliplatin
- GSM8805063 Cell3681, Oxaliplatin
- GSM8805064 Cell3686, Oxaliplatin
- GSM8805065 EV1005, Control
- GSM8805066 EV1231A, Control
- GSM8805067 EV2490, Control
- GSM8805068 EV3382, Control
- GSM8805069 EV3681, Control
- GSM8805070 EV3686, Control
- GSM8805071 EV1005, Oxaliplatin
- GSM8805072 EV1231A, Oxaliplatin
- GSM8805073 EV2490, Oxaliplatin
- GSM8805074 EV3382, Oxaliplatin
- GSM8805075 EV3681, Oxaliplatin
- GSM8805076 EV3686, Oxaliplatin
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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.