Genetic diversity as a marker for timing infection in HIV-infected patients: evaluation of a 6-month window and comparison with BED.
نویسندگان
چکیده
BACKGROUND It has been reported that the increase in human immunodeficiency virus (HIV) sequence diversity in drug resistance surveillance specimens may be used to classify the duration of HIV infection as <1 or >1 year. We describe a mixed base classifier (MBC) optimized to categorize the duration of subtype B infections as <6 or >6 months on the basis of sequences for drug resistance surveillance specimens and compared MBC findings with those of serologic methods. METHODS The behavior of the MBC was examined across a range of thresholds for calling mixed bases. MBC performance was then evaluated using either complete pol sequences or sites reflecting evolutionary pressures (HLA selection sites, sites that increased in entropy over the course of infection, and codon positions). RESULTS The MBC performance was optimal when secondary peaks on the sequencing chromatogram accounted for at least 15% of the area of primary peaks. A cutoff of <0.45% mixed bases in the pol region best identified recent infections (sensitivity = 82.7%, specificity = 78.8%), with improvement achieved by analyzing only sites that increased in entropy. CONCLUSIONS In an extended data set of 1354 specimens classified by BED, the optimized MBC performed significantly better than a simple MBC (agreement, 68.98% vs 67.13%). If further validated, the MBC may prove beneficial for detecting recent infection and estimating the incidence of HIV infection.
منابع مشابه
Immune Response to Standard Hepatitis B Vaccination in HIV-Infected Patients
Background: Due to their similar routes of transmission, human immunodeficiency virus (HIV) and hepatitis B virus (HBV) co-infection occurs considerably. HBV infection progresses more rapidly in HIV-infected patients. Therefore, HBV vaccination of all non-immune HIV infected patients is recommended. On the other hand, HIV-infected subjects have suboptimal responses to HBV vaccine. In this study...
متن کاملراهاندازی و بهکارگیری روش الیزا بهمنظور تشخیص حضور آنتیژن p24 در خون افراد آلوده به HIV
Introduction: Human immunodeficiency virus is the etiologic agent of immune system deficiency and the infected patients are susceptible to opportunistic infections and AIDS. Transmission of infection during blood transfusion and diagnosis of infection in hospitals and public health settings have steadily been a worldwide concern. Different techniques are now available for the diagnosis of HIV i...
متن کاملEvaluation of clinical course and laboratory findings in HIV/HTLV-1 co-infection compare with HIV mono infection
Background: In the last 10 years, co-infection of human immunodeficiency virus/human T-cell leukemia virus-1 (HIV/HTLV-1) has emerged as a worldwide health problem. These viruses has the same route to infect human but different effects on CD4 positive T-cells. There was controversial results about the influence of co-infection HIV/HTLV-1 pathogenesis. This study compared clinical course and lab...
متن کاملPathway Analysis of miRNA-1 and Its Expres-sion Evaluation in Donor’s Serum from HIV-Positive Individuals vs Unaffected Controls
Background MicroRNAs (miRNAs) are non-coding RNA molecules (19-24 nucleotides) that play a major role in a wide range of biological processes through post-transcriptional regulation of gene expression. Differential expression of miRNAs has been reported in various infectious diseases such as HIV infection. The characterization of miRNA expression profiles, especially in mammalian biofluids, whi...
متن کاملCytomegalovirus Active Infection in Persons Infected with Human Immunodeficiency Virus
Background and Objective: Cytomegalovirus (CMV), one of the most common opportunistic pathogens in patients infected with human immunodeficiency virus (HIV), can cause the diseases such as encephalitis, pneumonia, and chorioretinitis. This study aimed at molecular studying of CMV infection in individuals infected with the human immunodeficiency virus. Material and Methods: In this study, 50 ven...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- The Journal of infectious diseases
دوره 206 5 شماره
صفحات -
تاریخ انتشار 2012