| GeneLibs

题目:: Classifier analysis of gene expression profiles reveals a discriminatory gene set for soil containing different metals
ID:
状态:: 发布时间Feb. 4, 2010 , 更新时间 March 27, 2012 , 提交时间 Dec. 7, 2009,
物种:: Folsomia candida
摘要:: Environmental pollution is a worldwide problem, and metals are the largest group of contaminants in soil. Microarray toxicogenomic studies with ecologically relevant organisms such as springtails, supplement traditional ecotoxicological research, but are presently rather descriptive. Classifier analysis, a more analytical application of the microarray technique, is able to predict biological classes of unknown samples. We used the uncorrelated shrunken centroid (USC) method to classify gene expression profiles of the springtail Folsomia candida exposed to soil spiked with six different metals (barium, cadmium, cobalt, chromium, lead, and zinc). We identified a gene set (classifier) of 188 genes that can discriminate between six different metals present in soil, which allowed us to predict the correct classes for samples of an independent test set with an accuracy of 83% (error rate = 0.17). This study shows further that in order to apply classifier analysis to actual contaminated field soil samples, more insight and information is needed on the transcriptional responses of soil organisms to different soil types (properties) and mixtures of contaminants. Gene expression was measured in springtails after exposure of 2 days to soil containing either EC10 or EC50 of 6 different metals. The exposure experiment was performed in two separate series (1 and 2), both containing a separate non-spiked (LUFA 2.2) soil control. Also, two field soil samples were tested. The samples were divided into a separate training set and a validation set for USC classifier analysis.
实验种类:: transcription profiling by array
样本量:: 62
实验设计:
: 无设计数据
数据号:: E-GEOD-19353, GSE19353
数据状态:: 无法自动分析，您可以尝试手动分析数据。

实验库数据相关信息

DataTable pData

联系方式

微信公众号

实验库 数据相关信息

DataTable pData

联系方式

微信公众号

实验库数据相关信息