TY - JOUR
T1 - Transcriptome profiling of neuronal model cell PC12 from rat pheochromocytoma
AU - Saminathan, Ramasamy
AU - Pachiappan, Arjunan
AU - Feng, Luo
AU - Rowan, Edward G.
AU - Gopalakrishnakone, Ponnampalam
N1 - Funding Information:
Acknowledgements We are thankful to National University of Singapore for funding [R-181-000-089-112] and facilities to carry out this work. And, we are also grateful to Mr. Akira Niwayama, Director, Commercial Operations (Asia Pacific), Redwood City, CA, USA, for his extended support in providing IPA software (Ingenuity® Systems) and Mr. Len Sheng Wong, Genomax Technologies Pte Ltd, Singapore, for his technical support in analyzing Affymetrix® Genechip® expression data using GeneSpring GX 7.3.1 software.
PY - 2009/6
Y1 - 2009/6
N2 - GeneChip® microarray is a cutting-edge technology being used to study the expression patterns of genes with in a particular cell type. In this study, the Affymetrix® RAE230A platform was used to profile stably expressed mRNA transcripts from PC12 cells at passage 5 and 15. The whole-cell PC12 transcriptome revealed that a total of 7,531 stable transcripts (P < 0.05), corresponding to 6,785 genes, were found to be consistently expressed between passage 5 and 15. The data analysis revealed 3,080 functional proteins, belonging to 13 families, which indicate that about 65% of the proteins expressed in PC12 cells are uncharacterized. By using our custom-built rat neuronal reference genome database, we mapped endogenously expressed stable neuronal transcripts from PC12 cells comprising about 765 genes responsible for neuronal function and disease. These neuronal transcripts were further analyzed to provide a genetic blueprint that can be used by neurobiologist to unravel the complex cellular and molecular mechanisms underlying biological functions and their associated signalling networks for diseases affecting the nervous system.
AB - GeneChip® microarray is a cutting-edge technology being used to study the expression patterns of genes with in a particular cell type. In this study, the Affymetrix® RAE230A platform was used to profile stably expressed mRNA transcripts from PC12 cells at passage 5 and 15. The whole-cell PC12 transcriptome revealed that a total of 7,531 stable transcripts (P < 0.05), corresponding to 6,785 genes, were found to be consistently expressed between passage 5 and 15. The data analysis revealed 3,080 functional proteins, belonging to 13 families, which indicate that about 65% of the proteins expressed in PC12 cells are uncharacterized. By using our custom-built rat neuronal reference genome database, we mapped endogenously expressed stable neuronal transcripts from PC12 cells comprising about 765 genes responsible for neuronal function and disease. These neuronal transcripts were further analyzed to provide a genetic blueprint that can be used by neurobiologist to unravel the complex cellular and molecular mechanisms underlying biological functions and their associated signalling networks for diseases affecting the nervous system.
KW - Gene expression
KW - Microarray
KW - PC12 cells
KW - PC12 transcriptome
KW - Rat pheochromocytoma
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U2 - 10.1007/s10571-009-9345-y
DO - 10.1007/s10571-009-9345-y
M3 - Article
C2 - 19194798
AN - SCOPUS:67449123351
SN - 0272-4340
VL - 29
SP - 533
EP - 548
JO - Cellular and Molecular Neurobiology
JF - Cellular and Molecular Neurobiology
IS - 4
ER -