Editing DNA Methylation in vivo [RNA-Seq]
DNA methylation · mouse · 12 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 6 × Sc vs 3 × Pcsk9 vs 3 × Mecp2 PoolGroups 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 GSE280072_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: Look for beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1176145 and SRA study SRP540219. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 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.
- GSM8586968 Pcsk9 1 Pcsk9
- GSM8586969 Pcsk9 2 Pcsk9
- GSM8586970 Pcsk9 3 Pcsk9
- GSM8586971 Scr 1 Sc
- GSM8586972 Scr 2 Sc
- GSM8586973 Scr 3 Sc
- GSM8586974 Mecp2 Pool 1 Mecp2 Pool
- GSM8586975 Mecp2 Pool 2 Mecp2 Pool
- GSM8586976 Mecp2 Pool 3 Mecp2 Pool
- GSM8586977 Scr_1 Sc
- GSM8586978 Scr_2 Sc
- GSM8586979 Scr_3 Sc
- GSE290989 Charting Postnatal Heart Development Using In Vivo Single-Cell Functional Genomic [snRNA-Seq] 8 samples shares rna-seq, vivo
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares rna-seq
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares rna-seq
- GSE269191 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [in vivo] 145 samples shares vivo
- GSE242709 Global transcriptional profiles of primary and secondary cellular senescence in vivo by oncogene-induced senescence (OIS) and stress-induced senescence (SIS) 76 samples shares vivo
- GSE342349 CT26 multi-tissue RNA-seq under immunotherapy combinations 72 samples shares 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.