Hierarchically Clustering to 1,033 Genes Differentially Expressed in Mouse Superior Colliculus in the Courses of Optic N
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ORIGINAL PAPER
Hierarchically Clustering to 1,033 Genes Differentially Expressed in Mouse Superior Colliculus in the Courses of Optic Nerve Development and Injury Qiang Mei • Yan-qi Zhang • Jian-jun Liu • Cheng-ren Li • Xing-shu Chen • Hong-li Li • Mao-lin Qin • Ya-zhou wu • Yun-lai Liu • Wen-qin Cai
Ó Springer Science+Business Media New York 2013
Abstract Tempo spatially specific expression of many development-related genes is the molecular basis for the formation of the central nervous system (CNS), especially those genes regulating the proliferation, differentiation, migration, axon growth, and orientation of nerve cells. The development-related genes are usually prominent during the embryonic and newborn stages, but rarely express during the adulthood. These genes are believed to be suitable target genes for promoting CNS regeneration, despite majority of which remains unknown. Hence, the aim of this study was to screen development-related genes which might contribute to CNS regeneration. In this study, 1,033 differentiallyexpressed genes of superior colliculus in the courses of mouse optic nerve development and injury, as previously identified by cDNA microarrays, were hierarchically clustered to display expression pattern of each gene and reveal the relationships among these genes, and infer the functions of some unknown genes based on function-identified genes with the similar expression patterns. Consequently, the expression patterns of 1,033 candidate genes were revealed
at eight time points during optic nerve development or injury. According to the similarity among gene expression patterns, 1,033 genes were divided into seven groups. The potential function of genes in each group was inferred on the basis of the dynamic trend for mean gene expression values. Moreover, the expression patterns of six functionunidentified genes were extremely similar to that of the ptn gene which could promote and guide axonal extension. Therefore, these six genes are temporally regarded as candidate genes related to axon growth and guidance. The results may help to better understand the roles of functionidentified genes in the stages of CNS development and injury, and offer useful clues to evaluate the functions of hundreds of unidentified genes. Keywords Central nervous system Development Regeneration Axon growth Hierarchical cluster cDNA microarray
Introduction Q. Mei The 4th Team of Student Brigade, Third Military Medical University, Gaotanyan Street, Chongqing 400038, China Y. Zhang Y. wu Department of Medical Statistics, Third Military Medical University, Gaotanyan Street, Chongqing 400038, China J. Liu C. Li X. Chen H. Li M. Qin Y. Liu (&) W. Cai (&) Department of Histology and Embryology, Third Military Medical University, Gaotanyan Street, Chongqing 400038, China e-mail: [email protected] W. Cai e-mail: [email protected]
Regeneration of CNS after injury is a heated topic in neuroscience. Although some progresses have been reported, successful recovery of function is still hard to touch
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