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基于壓縮感知算法的基因表達(dá)譜數(shù)據(jù)分析_________

Analysis of gene expression data based on compressive sensing algorithm

作者:               任叢林  王瑞平          
單位:           北京交通大學(xué)計(jì)算機(jī)與信息技術(shù)學(xué)院(北京100044)    
關(guān)鍵詞:           壓縮感知;稀疏化;冗余字典;基因表達(dá)譜      
分類號:
出版年·卷·期(頁碼):2013·32·2(195-197)
摘要:

目的 基因表達(dá)譜數(shù)據(jù)分析是生物信息學(xué)領(lǐng)域最重要的研究內(nèi)容之一。其可實(shí)現(xiàn)對不同病理分型的腫瘤的正確分類,對腫瘤診斷和治療具有重大意義。方法 本文應(yīng)用壓縮感知算法實(shí)現(xiàn)對胃癌基因表達(dá)譜數(shù)據(jù)的分類,運(yùn)用訓(xùn)練數(shù)據(jù)構(gòu)造冗余字典,采用隨機(jī)分布的規(guī)范行矢量高斯矩陣構(gòu)造感知矩陣,對訓(xùn)練數(shù)據(jù)和測試數(shù)據(jù)進(jìn)行感知,利用正交l2-范數(shù)算法對基因表達(dá)譜數(shù)據(jù)進(jìn)行重建,在變換域中采用近鄰法測試判斷數(shù)據(jù)類別,與樣本的實(shí)際類別相比較。結(jié)果 實(shí)驗(yàn)結(jié)果表明,壓縮感知算法與K均值聚類、SVM等其他分類算法相比有較高的分類正確率,且分類速度快,能避免特征選取的問題。結(jié)論 本文方法對疾病的臨床診斷和生物信息學(xué)研究有重要的參考和借鑒作用。

Objective Analysis of gene expression data is one of the most important branches of bioinformatics research.Correctly classifying the samples with pathological classification is important for tumor diagnosis and treatment.Methods This paper introduces the compressive sensing algorism for the classification of gastric cancer gene expression data.The redundant dictionary is formed by using the training set,and the random matrix with Gaussian entries builds the sensing matrix with normal row vectors.In the test stage,the sensing matrix is projected onto the test vector,and the minimum 10-norm solution is computed with orthogonal l2-norm algorithm.The distance between the reconstruction vector and the train vector is employed to determine the class of the test data.Results Compared with classification methods of K-means,SVM and so on,the experimental results show compressive sensing algorism promising aspects as high accuracy and efficiency for gene expression data classification.Conclusions This method is important for clinical diagnosis and biomedical research.

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