Genome-wide maps of m6A circRNAs identify widespread and cell-type-specific methylation patterns that are distinct from mRNAs
DNA methylation · human · 12 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 6 conditions, mostly in duplicateGroups 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 GSE85324_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 PRJNA338243 and SRA study SRP081127. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 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.
- GSM2264767 H1 Ribominus input replicate 1 H1 Ribominus input
- GSM2264768 H1 Ribominus input replicate 2 H1 Ribominus input
- GSM2264769 H1 Ribominus eluate replicate 1 H1 Ribominus eluate
- GSM2264770 H1 Ribominus eluate replicate 2 H1 Ribominus eluate
- GSM2264771 HeLa Ribominus input replicate 1 HeLa Ribominus input
- GSM2264772 HeLa Ribominus input replicate 2 HeLa Ribominus input
- GSM2264773 HeLa Ribominus eluate replicate 1 HeLa Ribominus eluate
- GSM2264774 HeLa Ribominus eluate replicate 2 HeLa Ribominus eluate
- GSM2736004 H1 Ribominus sup replicate 1 H1 Ribominus sup
- GSM2736005 H1 Ribominus sup replicate 2 H1 Ribominus sup
- GSM2736006 HeLa Ribominus sup replicate 1 HeLa Ribominus sup
- GSM2736007 HeLa Ribominus sup replicate 2 HeLa Ribominus sup
- GSE274999 Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCs [RNA-Seq] 52 samples shares methylation, distinct
- GSE261834 Distinct structural and functional heterochromatin partitioning of lamin B1 and lamin B2 revealed using genome-wide Nicking Enzyme Epitope targeted DNA sequencing. 51 samples shares genome-wide, distinct
- GSE298243 Single-Cell Profiling of DNA Methylation in Autism Spectrum Disorder Prefrontal Cortex Reveals Distinct Regulatory and Aging Signatures 49 samples shares methylation, distinct
- GSE272142 Genome‑wideBrain DNAMethylationandGeneExpression Patterns Unravel Epigenetic Reprogramming in Mesial Temporal Lobe Epilepsy 12 samples shares methylation, patterns
- GSE278951 Genome-wide DNA replication profiling and full-length total RNA sequencing from the same single cell [hTERT-RPE1 Whole-S] 98 samples shares genome-wide
- GSE256353 Upregulated cholesterol biosynthesis facilitates the survival of methylation-retaining AML cells following decitabine treatment [single_colony_TEM-Seq] 1728 samples shares methylation
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples shares genome-wide
- GSE74193 Mapping DNA methylation across development, genotype, and schizophrenia in the human frontal cortex 675 samples shares methylation
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.