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Neuron. 2011 Aug 25;71(4):605-16. doi: 10.1016/j.neuron.2011.06.039.

A transcriptomic atlas of mouse neocortical layers.

Author information

1
MRC Functional Genomics Unit, University of Oxford, Oxford OX1 3QX, UK.

Abstract

In the mammalian cortex, neurons and glia form a patterned structure across six layers whose complex cytoarchitectonic arrangement is likely to contribute to cognition. We sequenced transcriptomes from layers 1-6b of different areas (primary and secondary) of the adult (postnatal day 56) mouse somatosensory cortex to understand the transcriptional levels and functional repertoires of coding and noncoding loci for cells constituting these layers. A total of 5,835 protein-coding genes and 66 noncoding RNA loci are differentially expressed ("patterned") across the layers, on the basis of a machine-learning model (naive Bayes) approach. Layers 2-6b are each associated with specific functional and disease annotations that provide insights into their biological roles. This new resource (http://genserv.anat.ox.ac.uk/layers) greatly extends currently available resources, such as the Allen Mouse Brain Atlas and microarray data sets, by providing quantitative expression levels, by being genome-wide, by including novel loci, and by identifying candidate alternatively spliced transcripts that are differentially expressed across layers.

PMID:
21867878
PMCID:
PMC3163272
DOI:
10.1016/j.neuron.2011.06.039
[Indexed for MEDLINE]
Free PMC Article

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