Analysis of the m6A methylome and downstream targets of piRNA AVCAPIR in human valvular interstitial cells
DNA methylation · human · 16 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Samples
- 16 samples: 16 samples, each with a distinct title — no replicated groupsGroups 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.
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 GSE214629_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 PRJNA886423 and SRA study SRP400695. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 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.
- GSM6613343 CAV-1.IP
- GSM6613344 CAV-1.Input
- GSM6613345 CAV-2.IP
- GSM6613346 CAV-2.Input
- GSM6613347 CAV-3.IP
- GSM6613348 CAV-3.Input
- GSM6613349 CAV-4.IP
- GSM6613350 CAV-4.Input
- GSM6613351 Control-1.IP
- GSM6613352 Control-1.Input
- GSM6613353 Control-2.IP
- GSM6613354 Control-2.Input
- GSM6613355 Control-3.IP
- GSM6613356 Control-3.Input
- GSM6613357 Control-4.IP
- GSM6613358 Control-4.Input
- GSE108112 Shared molecular targets in the tubulointerstitial transcriptome from patients with nephrotic syndrome and ANCA-associated vasculitis 169 samples shares interstitial, targets
- GSE252266 Exploring molecular profiles of osteogenically differentiated aortic valvular interstitial cells 6 samples shares interstitial, valvular
- GSE306211 Oscillatory shear stress induced extracellular vesicles mediate valvular endothelial-interstitial cell crosstalk exacerbating aortic valve calcification [RNA-Seq] 6 samples shares interstitial, valvular
- GSE194180 Single cell RNA sequencing of valvular interstitial cells and adipose derived mesenchymal stem cells 1 samples shares interstitial, valvular
- GSE56046 Transcriptomics and methylomics of human monocytes [methylome] 1202 samples shares methylome
- GSE63818 The Transcriptome and DNA Methylome Landscapes of Human Primordial Germ Cells 364 samples shares methylome
- GSE56581 Transcriptomics and methylomics of human T cells [methylome] 214 samples shares methylome
- GSE104954 Tubulointerstitial transcriptome from ERCB subjects with chronic kidney disease and living donor biopsies. 195 samples shares interstitial
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.