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Temporal Dynamics and Genetic Control of Transcription in the Human Prefrontal Cortex

GSE30272 Homo sapiens (human) Expression microarray 269 samples Submitted 2011/10/27 Platform GPL4611
At a glance

Expression microarray · human · 269 samples

What it is
Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism
Homo sapiens (human)
Samples
269 samples: 6 conditions, mostly with about 62 replicates eachGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed expression table (series matrix) and the array files, from NCBI.
Summary (written by the submitters)
In order to gain a global molecular perspective on how the human genome gives rise to the brain, we explore the temporal dynamics and genetic control of transcription in human dorsolateral prefrontal cortex in an extensive series of brain tissue from fetal development through aging. We discover a wave of gene expression changes occurring during fetal development which are reversed in early postnatal life.
Read the full summary ↓
One half century later in life, this phenomenon is mirrored in aging as well as neurodegeneration. While we identify thousands of robust associations of individual genetic polymorphisms with gene expression, we also demonstrate that there is no association between the total extent of genetic differences between subjects and the global similarity of their transcriptional profiles. Hence, the human genome produces a consistent molecular architecture in the prefrontal cortex, despite millions of genetic differences across individuals and races. To enable further discovery, this entire dataset is freely available (GEO). The gene expression from this study can be interrogated gene-by-gene with a biologist-friendly web application available at http://braincloud.jhmi.edu/plots/.
This dataset
Open GSE30272 in finder → Find more human microarray 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 (GSE30272_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: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA143735. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 22031444) ↗
Study design
6 conditions, mostly with about 62 replicates each
HB_18 ×62 HB_20 ×60 HB_17 ×56 HB_16 ×50 HB_22 ×37 HB_19 ×4

Supports a between-group comparison across 269 samples.

How we read this: 6 replicated groups read from 269 sample titles; they account for 269 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

+ 229 more — browse all 269 samples with per-sample file links →

Datasets on a similar topic

Search all human microarray datasets in GEO →

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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.