Metabolism-dependent secondary effect of anti-MAPK cancer therapy on DNA repair [RNA-seq]
RNA-seq (gene expression) · human · 12 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
- 12 samples: 12 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
- Metabolism-dependent secondary effect of anti-MAPK cancer therapy on DNA repairNAR cancer · 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 GSE232604_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 PRJNA972996 and SRA study SRP437934. 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 12 sample titles: 12 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.
- GSM7359855 A375_MAPKi_R1 [BRAF_245]
- GSM7359856 A375_MAPKi_R2 [BRAF_246]
- GSM7359857 A375_MAPKi_R3 [BRAF_247]
- GSM7359858 A375_DMSO_R1 [DMSO_245]
- GSM7359859 A375_DMSO_R2 [DMSO_246]
- GSM7359860 A375_DMSO_R3 [DMSO_247]
- GSM7359861 A375_CTRL_R1 [CTRL_185]
- GSM7359862 A375_CTRL_R2 [CTRL_226]
- GSM7359863 A375_CTRL_R3 [CTRL_230]
- GSM7359864 A375_-Q_R1 [Q_185]
- GSM7359865 A375_-Q_R2 [Q_226]
- GSM7359866 A375_-Q_R3 [Q_230]
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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.