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Series GSE38805 Query DataSets for GSE38805
Status Public on Jul 03, 2012
Title Transcriptomes of germinal zones of human and mouse fetal neocortex suggest a role of extracellular matrix in progenitor self-renewal.
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The expansion of the neocortex during mammalian brain evolution results primarily from an increase in neural progenitor cell divisions in its two principal germinal zones during development, the ventricular zone (VZ) and the subventricular zone (SVZ). Using mRNA sequencing, we analyzed the transcriptomes of fetal human and embryonic mouse VZ, SVZ and cortical plate (CP). We describe sets of genes that are up- or down-regulated in each germinal zone. These data suggest that cell adhesion and cell-extracellular matrix (ECM) interactions promote the proliferation and self-renewal of neural progenitors in the developing human neocortex. Notably, relevant ECM-associated genes include distinct sets of collagens, laminins, proteoglycans and integrins, along with specific sets of growth factors and morphogens. Our data establish a basis for identifying novel cell-type markers and open up avenues to unravel the molecular basis of neocortex expansion during evolution.
Overall design Total RNA was isolated from the VZ, inner SVZ (ISVZ), outer SVZ (OSVZ) and CP of six 13-16 weeks post-conception (w.p.c.) human fetuses and from the VZ, SVZ and CP of five E14.5 mouse embryos using laser capture microdissection of Nissl-stained cryosections of dorsolateral telencephalon. Poly A+ RNA was used as template for the preparation of cDNA which were then subjected to single-end 76-bp RNA-Seq.
Contributor(s) Fietz SA, Huttner WB, Pääbo S
Citation(s) 22753484
Submission date Jun 19, 2012
Last update date May 15, 2019
Contact name Martin Kircher
Organization name Max Planck Society
Street address Deutscher Platz 6
City Leipzig
ZIP/Postal code 04103
Country Germany
Platforms (2)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (39)
GSM949822 Human CP1
GSM949823 Human CP2
GSM949824 Human CP3
BioProject PRJNA168981
SRA SRP013825

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Supplementary file Size Download File type/resource
GSE38805_human_FPKM.txt.gz 1.3 Mb (ftp)(http) TXT
GSE38805_human_mouse_FPKM.txt.gz 1.4 Mb (ftp)(http) TXT
GSE38805_mouse_FPKM.txt.gz 765.6 Kb (ftp)(http) TXT
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