Parfenov Michael, Seidman J G
Department of Genetics, Harvard Medical School, Boston, Massachusetts.
Curr Protoc Hum Genet. 2015 Jul 1;86:18.9.1-18.9.10. doi: 10.1002/0471142905.hg1809s86.
Viruses and bacteria are established as one of the main causes of human diseases from hepatitis to cancer. Recently, the presence of such pathogens has been extensively studied using human whole genome and transcriptome sequencing data. However, detecting and studying pathogens via next generation sequencing data is a challenging task in terms of time and computational resources. In this protocol we give instructions for a simple and quick method to find pathogenic DNA or RNA and detect possible integration of the pathogen genome into the host genome.
病毒和细菌已被确认为是从肝炎到癌症等人类疾病的主要病因之一。最近，利用人类全基因组和转录组测序数据对这类病原体的存在进行了广泛研究。然而，通过下一代测序数据检测和研究病原体在时间和计算资源方面是一项具有挑战性的任务。在本方案中，我们给出了一种简单快速的方法的操作指南，用于查找致病DNA或RNA，并检测病原体基因组是否可能整合到宿主基因组中。
