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Selection of neural differentiation-specific genes by comparing profiles of random differentiation

Cited 26 time in Web of Science Cited 27 time in Scopus
Authors
Lee, Min Su; Jun, Dae-Hyun; Hwang, Chang-Il; Park, Seung Soo; Kang, Jason Jongho; Park, Hyun-Seok; Kim, Jihoon; Kim, Ju Han; Seo, Jeong-Sun; Park, Woong-Yang
Issue Date
2006-04-22
Publisher
AlphaMed Press
Citation
Stem Cells. 2006 Aug;24(8):1946-55. Epub 2006 Apr 20.
Keywords
AnimalsCell Differentiation/*genetics/*physiologyCell LineCluster AnalysisDNA (Cytosine-5-)-Methyltransferase/geneticsDNA Modification Methylases/genetics/metabolismEmbryonic Stem Cells/cytology/physiologyGene Expression ProfilingGene Expression Regulation, Developmental/*geneticsGenomic ImprintingMiceModels, GeneticNeurons/cytology/*physiologyOligonucleotide Array Sequence Analysis/methodsReverse Transcriptase Polymerase Chain Reaction/methods
Abstract
Differentiation of embryonic stem cells (ESCs) into neurons requires a high level of transcriptional regulation. To further understand the transcriptional regulation of neural differentiation of ESCs, we used oligonucleotide microarray to examine the gene expressions of the guided differentiation (GD) model for dopaminergic (DA) neurons from mouse ESCs. We also determined the gene expression profiles of the random differentiation (RD) model of mouse ESCs into embryoid bodies. From K-means clustering analysis using the expression patterns of the two models, most of the genes (1,282 of 1,884 genes [68.0%]) overlapped in their expression patterns. Six hundred twenty-two differentially expressed genes (DEGs) from the GD model by random variance F-test were classified by their critical molecular functions in neurogenesis and DNA replication (Gene Ontology analysis). However, 400 genes among GD-DEGs (64.3%) showed a high correlation with RD in Spearman's correlation analysis (Spearman's coefficient p(s) >or= .6). The genes showing marginal correlation (-.4 < p(s) < .6) were present in the early stages of differentiation of both GD and RD, which were non-specific to brain development. Finally, we distinguished 66 GD-specific genes based on p(s)
ISSN
1066-5099 (Print)
Language
English
URI
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16627687

https://hdl.handle.net/10371/36313
DOI
https://doi.org/10.1634/stemcells.2005-0325
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College of Medicine/School of Medicine (의과대학/대학원)Dept. of Biochemistry & Molecular Biology (생화학교실)Journal Papers (저널논문_생화학교실)
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