title: [Prediction and bioinformatics analysis of human gene expression profiling regulated by amifostine].
abstract: Objective of this study was to perform bioinformatics analysis of the characteristics of gene expression profiling regulated by amifostine and predict its novel potential biological function to provide a direction for further exploring pharmacological actions of amifostine and study methods. Amifostine was used as a key word to search internet-based free gene expression database including GEO, affymetrix gene chip database, GenBank, SAGE, GeneCard, InterPro, ProtoNet, UniProt and BLOCKS and the sifted amifostine-regulated gene expression profiling data was subjected to validity testing, gene expression difference analysis and functional clustering and gene annotation. The results showed that only one data of gene expression profiling regulated by amifostine was sifted from GEO database (accession: GSE3212). Through validity testing and gene expression difference analysis, significant difference (p < 0.01) was only found in 2.14% of the whole genome (460/192000). Gene annotation analysis showed that 139 out of 460 genes were known genes, in which 77 genes were up-regulated and 62 genes were down-regulated. 13 out of 139 genes were newly expressed following amifostine treatment of K562 cells, however expression of 5 genes was completely inhibited. Functional clustering displayed that 139 genes were divided into 11 categories and their biological function was involved in hematopoietic and immunologic regulation, apoptosis and cell cycle. It is concluded that bioinformatics method can be applied to analysis of gene expression profiling regulated by amifostine. Amifostine has a regulatory effect on human gene expression profiling and this action is mainly presented in biological processes including hematopoiesis, immunologic regulation, apoptosis and cell cycle and so on. The effect of amifostine on human gene expression need to be further testified in experimental condition.
authors: Department of Geriatric Hematology, Chinese PLA General Hospital, Beijing 100853, China.
authors: Bo
authors: B
authors: Yang
authors: Li-Li
authors: LL
authors: Cai
authors: Xiao-Hua
authors: XH
authors: Chi
authors: Xue-Chun
authors: XC
authors: Lu
authors: Feng
authors: F
authors: Zhang
authors: Shuai
authors: S
authors: Tuo
authors: Hong-Li
authors: HL
authors: Zhu
authors: Li-Hong
authors: LH
authors: Liu
authors: Jiang-Wei
authors: JW
authors: Yan
authors: Chao-Wei
authors: CW
authors: Tuo
mesh_terms: D004999:Amifostine / Q000494:pharmacology*; D019295:Computational Biology; D015870:Gene Expression / Q000187:drug effects*; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D046228:Microarray Analysis; D058977:Molecular Sequence Annotation
chemical_list: D004999:Amifostine