mRNA export factors store nascent transcripts within nuclear speckles as an adaptive response to transient global inhibition of transcription [SLAM-seq]
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 conditions, mostly in triplicateGroups 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
- mRNA export factors store nascent transcripts within nuclear speckles as an adaptive response to transient global inhibition of transcriptionMolecular cell · 2025
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 GSE284174_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 PRJNA1197500 and SRA study SRP551145. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8679284 DMSO_Tot_1 DMSO_Tot
- GSM8679285 dBET_Tot_1 dBET_Tot
- GSM8679286 DMSO_Nuc_1 DMSO_Nuc
- GSM8679287 dBET_Nuc_1 dBET_Nuc
- GSM8679288 dBET_Nuc_2 dBET_Nuc
- GSM8679289 DMSO_Cyt_1 DMSO_Cyt
- GSM8679290 dBET_Cyt_1 dBET_Cyt
- GSM8679291 dBET_Cyt_2 dBET_Cyt
- GSM8679292 DMSO_Tot_2 DMSO_Tot
- GSM8679293 DMSO_Tot_3 DMSO_Tot
- GSM8679294 dBET_Tot_2 dBET_Tot
- GSM8679295 dBET_Tot_3 dBET_Tot
- GSM8679296 DMSO_Nuc_2 DMSO_Nuc
- GSM8679297 DMSO_Nuc_3 DMSO_Nuc
- GSM8679298 dBET_Nuc_3 dBET_Nuc
- GSM8679299 DMSO_Cyt_2 DMSO_Cyt
- GSM8679300 dBET_Cyt_3 dBET_Cyt
- GSM8679301 DMSO_Cyt_3 DMSO_Cyt
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares transcription, factors
- GSE301298 Functional redundancy between UTY and UTX in regulating the localization of transcription factors involved in pluripotency 88 samples shares transcription, factors
- GSE275721 Lineage master regulator and cancer-selective partner transcription factors rewire 3D genome topology for tumor-specific gene control 72 samples shares transcription, factors
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares transcription, factors
- GSE314310 Cardiopedia-Ligand: a Ligand Stimulation Atlas for Cardiac Function and Transcriptional Response 468 samples shares transcription
- GSE271676 Spatial Transcriptional Landscape of Human Heart Failure 178 samples shares transcription
- GSE317503 Reference-guided genome assembly of long non-coding RNA transcripts reveals target genes associated with Crohn’s disease 140 samples shares transcripts
- GSE274546 The Multi-Layered Transcriptional Architecture of Glioblastoma Ecosystems [10X] 121 samples shares transcription
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.