34、耐药位点比对分析,采用sequencher 5.4.6序列拼接软件获得拼接序列,所述拼接序列根据测序结果拼接而成,可反应原始碱基序列;导出拼接序列并保存; 35、打开hiv drug resistance database耐药分析网站(https://hivdb.stanford.edu/hivdb/by-patterns/),导入拼接序列进行耐药性分析。 36、第四方面,本技术提供了第一方面...
1.2.3 耐药判定 将序列提交至斯坦福耐药数据库(Stanford HIV Drug Resistance Database, http://hivdb.Stanford.edu), 通过在线分析工具对耐药突变位点(drug resistance mutations, DRMs)鉴定和解释, 得到所有抗病毒治疗药物的耐药程度以及耐药突变位点情况。根据耐药评分将药物敏感性分为五个水平:敏感(0~9)、潜在耐...
这样的位点可通过查阅已知数据库如斯坦福大学hiv药物抗性数据库(stanforduniversityhivdrugresistancedatabase)来鉴别,在该数据库中,例如,可找到具有特定突变病毒的序列和处理或者针对具有选择突变的隔离群的药物敏感性数据。用于测试hiv的抗药性的试验是本领域中已知的。参见dongj,us20040106136和shaferr,assayforantiretroviral...
Additionally, the studies utilized genotyping methods for evaluating HIVDR and employed the Stanford HIV Drug Resistance Database (http://hivdb.stanford.edu) for resistance assessment. Exclusion criteria comprised studies using data from gene banks or relying on information from medical records of ...
DRM analyses in PR-RT and IN regions were performed in the Stanford HIV Drug Resistance Database (https://hivdb.stanford.edu)59 using Stanford HIVdb Program Genotypic Resistance Interpretation Algorithm (https://hivdb.stanford.edu/hivdb/by-sequences)60. Inferred levels of resistance of HIV-1...
Primary resistance to InSTIs was predicted with Stanford University HIV Drug Resistance Database, Genotypic Resistance Interpretation Algorithm version 8.831. HIV-1 subtypes were determined by several algorithms: Rega HIV-1 Subtyping Tool, version 3.0., jumping profile Hidden Markov Model (jpHMM), ...
To estimate the fitness function under NFV selective pressure, clinical data was pooled from the Stanford HIV Drug Resistance Database (Kantor et al., 2001), from the University Hospitals, Leuven, Belgium, and from Hospital Egas Monis, Lisbon, Portugal, to create a treated population PT of ...
(B) Different drug resistance levels of three classes of antiretroviral drugs predicted by the Stanford HIV Drug Resistance Database. Abbreviations: ATV, atazanavir; DRV, darunavir; FPV, fosamprenavir; IDV, indinavir; LPV/r, ritonavir-boosted lopinavir; NFV, nelfinavir; SQV, saquinavir...
方法从安徽,河南等7个地区选取97例病毒载量大于检测限,同时1 000拷贝/mL的血浆样本,采用实验室自制(in house)方法扩增pol区的蛋白酶和反转录酶基因区,片段长度1.3kb,测得序列并经编辑后,提交至Stanford HIV Drug Resistance Database(http://hivdb.Stanford.edu),分析耐药位点与耐药程度.结果在耐药毒株出现的...
The codons with drug resistance mutations (detected via the Stanford University HIV Drug Resistance HIVdb program at https://hivdb.stanford.edu) were manually removed from the alignment to avoid the confounding factor of convergent evolution in the phylogeny inference [30]. To infer the potential ...