Absence of SMARCB1 in rhabdoid tumor cells increases sensitivity to translation inhibition and alters translation efficiency of specific mRNAsn
RNA-seq (gene expression) · human · 16 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
- 16 samples: 16 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
- Absence of SMARCB1 in rhabdoid tumor cells increases sensitivity to translation inhibition and alters translation efficiency of specific mRNAsThe Journal of biological chemistry · 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 GSE268318_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 PRJNA1116205 and SRA study SRP509802. 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 16 sample titles: 16 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.
- GSM8289598 SMARCB1_Dox_rep1_Ribo
- GSM8289599 GFP_Dox_rep1_Ribo
- GSM8289600 SMARCB1_DMSO_rep1_Ribo
- GSM8289601 GFP_DMSO_rep1_Ribo
- GSM8289602 SMARCB1_Dox_rep2_Ribo
- GSM8289603 GFP_Dox_rep2_Ribo
- GSM8289604 SMARCB1_DMSO_rep2_Ribo
- GSM8289605 GFP_DMSO_rep2_Ribo
- GSM8289606 SMARCB1_Dox_rep1_RNA
- GSM8289607 GFP_Dox_rep1_RNA
- GSM8289608 SMARCB1_DMSO_rep1_RNA
- GSM8289609 GFP_DMSO_rep1_RNA
- GSM8289610 SMARCB1_Dox_rep2_RNA
- GSM8289611 GFP_Dox_rep2_RNA
- GSM8289612 SMARCB1_DMSO_rep2_RNA
- GSM8289613 GFP_DMSO_rep2_RNA
- GSE279022 RNA N6-Methyladenosine (m6A) regulates cell cycle progression in Diffuse Midline Glioma (DMG) and confers sensitivity to FTO inhibition 30 samples shares sensitivity, inhibition
- GSE310281 Translational control by RPL22L1-specific ribosomes enhances DNA repair and chemoresistance 12 samples shares translation, specific
- GSE254244 Cancer cell type-specific derepression of transposable elements by inhibition of chromatin modifier enzymes 112 samples shares inhibition, specific
- GSE288570 Tumor-associated neutrophil precursors impair homologous DNA repair and promote sensitivity to PARP-inhibition. 18 samples shares sensitivity, inhibition
- GSE274373 SIRT2 is a regulator of the differentiation block driven by SMARCB1 loss in ATRT [bulk RNA-seq] 12 samples shares smarcb1
- GSE254732 Inhibition of PCSK9 with evolocumab modulates lipoproteins and monocyte activation in high-risk ASCVD subjects 215 samples shares inhibition
- GSE275078 In vitro drug screening of RAF/MEK/ERK Inhibitors in combination with Autophagy inhibition in the context of two PDA Cell Lines 136 samples shares inhibition
- GSE318816 Blood-based Molecular Endotyping of Fibrotic Hypersensitivity Pneumonitis Identifies Two Immune Subtypes with Divergent Clinical Outcomes 126 samples shares sensitivity
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.