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Cerebellum Illumina Inf 450 DNA methylation samples from HIV+ and HIV- human subjects

GSE67748 Homo sapiens (human) DNA methylation 20 samples Submitted 2015/06/09 Platform GPL13534
At a glance

DNA methylation · human · 20 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Homo sapiens (human)
Samples
20 samples: 20 × genomic DNA from human cerebellum sampleGroups 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.
Summary (written by the submitters)
Genome wide DNA methylation profiles of cerebellum from HIV positive and HIV negative human subjects. The Illumina Infinium 450k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 486,000 CpGs. Dataset included 20 subjects from the USA. The epigenetic clock software (Horvath 2013) was used to measure epigenetic age acceleration effects and to relate them to HIV status.
This dataset
Open GSE67748 in finder → Find more human methylation datasets →
Download · which file do I need?

Direct links to NCBI, 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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗
3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE67748_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: Look for beta-value tables or raw IDAT files among the supplementary files.

Also filed as BioProject PRJNA280836. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 25969563) ↗
Study design
20 × genomic DNA from human cerebellum sample

Supports a between-group comparison across 20 samples.

How we read this: 1 replicated groups read from 20 sample titles; they account for 20 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.

Samples in this study
Datasets on a similar topic

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