A nuclear ERK–ATF5 axis coordinates mitochondrial metabolism and thermogenic gene expression in brown adipocytes
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 8 distinct titles, 2 of them repeatedGroups 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.
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 GSE315093_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 PRJNA1394982 and SRA study SRP658556. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 10 sample titles: 8 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.
- GSM9421093 WT-1 cell, sicontrol_1, 24h
- GSM9421094 WT-1 cell, sicontrol_2, 24h
- GSM9421095 WT-1 cell, sicontrol_3, 24h
- GSM9421096 WT-1 cell, siAtf5_1, 24h
- GSM9421097 WT-1 cell, siAtf5_2, 24h
- GSM9421098 WT-1 cell, siAtf5_3, 24h
- GSM9421099 BAT, control_1
- GSM9421100 BAT, control_2
- GSM9421101 BAT, ATF5KO_1
- GSM9421102 BAT, ATF5KO_2
- GSE271207 2-hydroxyglutarate mediates whitening of brown adipocytes coupled to nuclear softening upon mitochondrial dysfunction 16 samples shares mitochondrial, adipocytes, nuclear, brown
- GSE213104 Gene expression profile at single cell level of Merkel cells from embryonic, neonatal and postnatal mouse skin 1057 samples shares erk
- GSE236129 Activation of RAS/MEK/ERK signaling drives biliary differentiation in primary liver cancer [112UE] 80 samples shares erk
- GSE316124 Mutant FGFR3 restricts bone yet expands brain via ERK-mediated self-repression 20 samples shares erk
- GSE319950 Erk3 deletion drives oxidative adaptations in skeletal muscle 18 samples shares erk
- GSE293205 Integrated ERK-PKA-YAP/TAZ-SHH Signaling Orchestrates Cortical Radial Glia Identity and Lineage Diversification 11 samples shares erk
- GSE325774 WDR82 suppresses breast cancer progression by inhibiting ERK-driven chemokine expression and neutrophil infiltration 9 samples shares erk
- GSE239814 Mitochondrial signals mediate paternal effects on offspring metabolism (Smart-Seq) 221 samples shares mitochondrial
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.