Urisman Anatoly, Fischer Kael F, Chiu Charles Y, Kistler Amy L, Beck Shoshannah, Wang David, DeRisi Joseph L
Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94143, USA.
Genome Biol. 2005;6(9):R78. doi: 10.1186/gb-2005-6-9-r78. Epub 2005 Aug 30.
DNA microarrays may be used to identify microbial species present in environmental and clinical samples. However, automated tools for reliable species identification based on observed microarray hybridization patterns are lacking. We present an algorithm, E-Predict, for microarray-based species identification. E-Predict compares observed hybridization patterns with theoretical energy profiles representing different species. We demonstrate the application of the algorithm to viral detection in a set of clinical samples and discuss its relevance to other metagenomic applications.
DNA微阵列可用于识别环境样本和临床样本中存在的微生物种类。然而，目前缺乏基于观察到的微阵列杂交模式进行可靠物种识别的自动化工具。我们提出了一种名为E-Predict的算法，用于基于微阵列的物种识别。E-Predict将观察到的杂交模式与代表不同物种的理论能量图谱进行比较。我们展示了该算法在一组临床样本中的病毒检测应用，并讨论了其与其他宏基因组学应用的相关性。
