Brd4::Nutm1 fusion gene initiates NUT carcinoma in vivo [RNA-seq]
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 6 × mNC_tumo vs 6 × normal_oral_mucosaGroups 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
- Brd4::Nutm1 fusion gene initiates NUT carcinoma in vivoLife science alliance · 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 GSE263558_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 PRJNA1098066 and SRA study SRP500557. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8194465 mNC_tumor 1 mNC_tumo
- GSM8194466 mNC_tumor 2 mNC_tumo
- GSM8194467 mNC_tumor 3 mNC_tumo
- GSM8194468 mNC_tumor 4 mNC_tumo
- GSM8194469 mNC_tumor 5 mNC_tumo
- GSM8194470 mNC_tumor 6 mNC_tumo
- GSM8194471 normal_oral_mucosa_1 normal_oral_mucosa
- GSM8194472 normal_oral_mucosa_2 normal_oral_mucosa
- GSM8194473 normal_oral_mucosa_3 normal_oral_mucosa
- GSM8194474 normal_oral_mucosa_4 normal_oral_mucosa
- GSM8194475 normal_oral_mucosa_5 normal_oral_mucosa
- GSM8194476 normal_oral_mucosa_6 normal_oral_mucosa
- GSE276679 Comprehensive Molecular and Functional Analysis of NUTM1-Rearranged Leukemia [leukemia-RNA-seq] 12 samples shares nutm1, nut, rna-seq
- GSE307525 Comprehensive Molecular and Functional Analysis of NUTM1-Rearranged Leukemia [iLS-bulkRNA] 18 samples shares nutm1, nut
- GSE276675 Comprehensive Molecular and Functional Analysis of NUTM1-Rearranged Leukemia [ATAC-Seq] 12 samples shares nutm1, nut
- GSE248964 Isoform Usage as a Distinct Regulatory Layer Driving Nutrient-Responsive Metabolic Adaptation (RNA-seq) 117 samples shares nut, rna-seq
- GSE278920 Interplay between Genetic Variation and Nutrition Challenge Controls Hepatic Diurnal Rhythms [RNA-seq] 108 samples shares nut, rna-seq
- GSE316703 Microbiota-Derived Isovalerate Ameliorates Sex-Specific Gut Barrier Dysfunction in Malnutrition [RNA-seq colon epithelium] 50 samples shares nut, rna-seq
- GSE245251 Synaptic Activity Causes Minute-scale Changes in BAF Complex Composition and Function [RNA-Seq] 24 samples shares nut, rna-seq
- GSE287894 Biosynthetic plasticity enables CD8+ T cell functional resilience under nutrient stress [Atf4 & Cebpg KO RNA-seq] 18 samples shares nut, 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.