TY - GEN
T1 - Stochastic modeling of dynamic effects of copy number alterations upon gene expression levels
AU - Hsu, Fang Han
AU - Serpedin, Erchin
AU - Chen, Yidong
AU - Dougherty, Edward R.
PY - 2011
Y1 - 2011
N2 - DNA copy number alterations (CNAs) are known to be related to genetic diseases, including cancer. Our previous study proposed a stochastic model to investigate the relationship between copy number and gene expression values. The simulation results revealed that the relationship is not generally linear except when the ratio of transcription factor (TF) arrival rate to TF departure rate is large. However, only a transcription productive (ON) state was considered in the previous study. Under certain environmental conditions, the demand for mRNA is limited and hence the transcription is turned off and strictly regulated. In this study, an alternative (OFF) state of transcription is proposed, in which, bound TFs are assumed to be shut down, or unloaded, immediately after stimulating a transcription. Using the Laplace-Stieltjes transform and numerical analysis, the relationship between DNA copy number and gene expression level is evaluated. The stochastic models show that CNAs would potentially alter, or even reverse, the amplitude changes of gene expression levels between the productive (ON) state and the alternative (OFF) state.
AB - DNA copy number alterations (CNAs) are known to be related to genetic diseases, including cancer. Our previous study proposed a stochastic model to investigate the relationship between copy number and gene expression values. The simulation results revealed that the relationship is not generally linear except when the ratio of transcription factor (TF) arrival rate to TF departure rate is large. However, only a transcription productive (ON) state was considered in the previous study. Under certain environmental conditions, the demand for mRNA is limited and hence the transcription is turned off and strictly regulated. In this study, an alternative (OFF) state of transcription is proposed, in which, bound TFs are assumed to be shut down, or unloaded, immediately after stimulating a transcription. Using the Laplace-Stieltjes transform and numerical analysis, the relationship between DNA copy number and gene expression level is evaluated. The stochastic models show that CNAs would potentially alter, or even reverse, the amplitude changes of gene expression levels between the productive (ON) state and the alternative (OFF) state.
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U2 - 10.1109/gensips.2011.6169449
DO - 10.1109/gensips.2011.6169449
M3 - Conference contribution
AN - SCOPUS:84863701382
SN - 9781467304900
T3 - Proceedings - IEEE International Workshop on Genomic Signal Processing and Statistics
SP - 83
EP - 86
BT - Proceedings 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
PB - IEEE Computer Society
T2 - 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
Y2 - 4 December 2011 through 6 December 2011
ER -