 | Theoretical Estimation of Systematic Errors Caused by Probe-Target Cross-Hybridization in DNA Microarray Experiments
|
| | Mitsuteru Nakao1), K.Yoshinori OKUJI1), Masumi Itoh1), Toshiaki Katayama1), Shuichi Kawashima1), Iwane Suzuki2), Norio Murata2) and Minoru Kanehisa1) |
| 1) Institute for Chemical Research, Kyoto University
2) National Institute of Basic Biology |
| | Microarray gene expression data contains many errors that could be classified into two types, one is systematic error and the other is random error. We should estimate the effects of systematic error so as to reconstruct more realistic genetic networks by using gene expression profiles. Systematic errors occur on multiple stages, such as spotting, RT reaction, hybridization and scanning processes. In this study, we have considered especially systematic errors to depend on the probe/target nucleotide sequences, such as the probe-targe sequence similarities and the probes purity. Statistical tests for the systematic errors have been performed with the Synechocystis DNA microarrays. The results show that certain sequence similarities in probes lead to the significant influences in gene expression similarities. |
| | | |
