BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis [RNA-Seq]
RNA-seq (gene expression) · mouse · 8 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
- 8 samples: 4 × Bmal1WT vs 4 × Bmal1cKOGroups 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 GSE329010_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 PRJNA1457373 and SRA study SRP694501. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 2 replicated groups read from 8 sample titles; they account for 8 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.
- GSM9695766 Bmal1WT_1 Bmal1WT
- GSM9695767 Bmal1WT_2 Bmal1WT
- GSM9695768 Bmal1WT_3 Bmal1WT
- GSM9695769 Bmal1WT_4 Bmal1WT
- GSM9695770 Bmal1cKO_1 Bmal1cKO
- GSM9695771 Bmal1cKO_2 Bmal1cKO
- GSM9695772 Bmal1cKO_3 Bmal1cKO
- GSM9695773 Bmal1cKO_4 Bmal1cKO
- GSE294336 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis [RNA-seq Aged_adult] 48 samples shares bmal1, yap, cooperate, enhancers, epidermis, promote, rna-seq, hijack
- GSE294339 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis [RNA-seq Col14] 48 samples shares bmal1, yap, cooperate, enhancers, epidermis, promote, rna-seq, hijack
- GSE294389 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis 131 samples shares bmal1, yap, cooperate, enhancers, epidermis, promote, hijack
- GSE294069 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis [ChIP-Seq 1] 20 samples shares bmal1, yap, cooperate, enhancers, epidermis, promote, hijack
- GSE294070 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis [ChIP-Seq 2] 15 samples shares bmal1, yap, cooperate, enhancers, epidermis, promote, hijack
- GSE300774 H3K9me3 controls epidermis development by repressing RNA Pol II activity on key promoters and enhancers 34 samples shares enhancers, epidermis, promote
- GSE274930 ZMAT1 promotes osteoclast formation and bone loss through TRIM46 mediated YAP1 degradation II 18 samples shares yap, promote
- GSE282175 RNA-seq of retinal microglia and non-microglial retina cells in WT (Bmal1f/f) and microglial Bmal1-KO (Bmal1-mg/-mg) mice 18 samples shares bmal1, 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.