Effect of depletion of NSUN4 on gene expression of NCI-H226 cells [RNA-seq]
RNA-seq (gene expression) · human · 6 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
- 6 samples: 3 × NCI-H226, shNSUN4 vs 3 × NCI-H226, shControlGroups 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 GSE274275_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 PRJNA1145854 and SRA study SRP524933. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 2 replicated groups read from 6 sample titles; they account for 6 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.
- GSM8446755 NCI-H226, shNSUN4-1 NCI-H226, shNSUN4
- GSM8446756 NCI-H226, shNSUN4-2 NCI-H226, shNSUN4
- GSM8446757 NCI-H226, shNSUN4-3 NCI-H226, shNSUN4
- GSM8446758 NCI-H226, shControl-1 NCI-H226, shControl
- GSM8446759 NCI-H226, shControl-2 NCI-H226, shControl
- GSM8446760 NCI-H226, shControl-3 NCI-H226, shControl
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- GSE282444 Epigenetic Memory of Intestinal Epithelial Cells in Inflammatory Bowel Disease [RNA-seq] 56 samples shares rna-seq
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- GSE224334 Gene expression profile at single cell level of ovarian clear cell carcinoma (OCCC) [snRNA-seq OCCC] 10 samples shares rna-seq
- GSE326221 Acquired genetic and cell state changes in IDH-mutant glioma progression [snRNA-seq] 75 samples shares rna-seq
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.