Abstract:
:Recent studies have shown the public health importance of identifying individuals with acute human immunodeficiency virus infection (AHI); however, the cost of nucleic acid amplification testing (NAAT) makes individual testing of at-risk individuals prohibitively expensive in many settings. Pooled NAAT (or group testing) can improve efficiency and test performance of testing for AHI, but optimizing the pooling algorithm can be difficult. We developed simple, flexible biostatistical models of specimen pooling with NAAT for the identification of AHI cases; these models incorporate group testing theory, operating characteristics of biological assays, and a model of viral dynamics during AHI. Pooling algorithm sensitivity, efficiency (test kits used per individual specimen evaluated), and positive predictive value (PPV) were modeled and compared for three simple pooling algorithms: two-stage minipools (D2), three-stage hierarchical pools (D3), and square arrays with master pools (A2m). We confirmed the results by stochastic simulation and produced reference tables and a Web calculator to facilitate pooling by investigators without specific biostatistical expertise. All three pooling strategies demonstrated improved efficiency and PPV for AHI case detection compared to individual NAAT. D3 and A2m algorithms generally provided better efficiency and PPV than D2; additionally, A2m generally exhibited better PPV than D3. Used selectively and carefully, the simple models developed here can guide the selection of a pooling algorithm for the detection of AHI cases in a wide variety of settings.
journal_name
J Clin Microbioljournal_title
Journal of clinical microbiologyauthors
Westreich DJ,Hudgens MG,Fiscus SA,Pilcher CDdoi
10.1128/JCM.00787-07subject
Has Abstractpub_date
2008-05-01 00:00:00pages
1785-92issue
5eissn
0095-1137issn
1098-660Xpii
JCM.00787-07journal_volume
46pub_type
杂志文章abstract::First-catch early morning urine samples from patients attending a genitourinary medicine clinic were tested by three different enzyme immunoassays. The results suggest significant differences in the sensitivities and specificities of the different assays. The direct visualization of elementary bodies in urine deposits...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.28.2.220-222.1990
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journal_title:Journal of clinical microbiology
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doi:10.1128/JCM.29.9.2024-2029.1991
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.33.12.3191-3193.1995
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abstract::Bacterial vaginosis (BV) remains the most common cause of abnormal vaginal discharge in women of reproductive age and is associated with increased susceptibility to human immunodeficiency virus and sexually transmitted infections and preterm delivery. Present diagnostic methods require access to microscopy and laborat...
journal_title:Journal of clinical microbiology
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doi:10.1128/JCM.43.3.1304-1308.2005
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abstract::We have used comparative genomic hybridization (CGH) on a full-genome Campylobacter jejuni microarray to examine genome-wide gene conservation patterns among 51 strains isolated from food and clinical sources. These data have been integrated with data from three previous C. jejuni CGH studies to perform a meta-analysi...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章,meta分析
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.42.11.5415-5418.2004
更新日期:2004-11-01 00:00:00
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.44.2.468-473.2006
更新日期:2006-02-01 00:00:00
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journal_title:Journal of clinical microbiology
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更新日期:1997-04-01 00:00:00
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.10.5.737-746.1979
更新日期:1979-11-01 00:00:00
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.19.5.699-702.1984
更新日期:1984-05-01 00:00:00
abstract::We tested 121 pneumococcal serogroup 6 isolates (including 30 serotype 6C and 24 serotype 6D isolates) by serotype-specific PCR and the Quellung reaction, using "old" and "new" pool B, factor 6b, and new factor 6d antisera. In combination with group B and other factor antisera, factor 6d antiserum can reliably identif...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00675-10
更新日期:2010-09-01 00:00:00
abstract::Optimal conditions for demonstrating the presence of infectious human immunodeficiency virus in peripheral blood mononuclear cells (PMCs) from seropositive individuals involved cocultivation of infected cells with phytohemagglutinin-stimulated PMCs from seronegative donors in the presence of 2 micrograms of Polybrene ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.11.2371-2376.1988
更新日期:1988-11-01 00:00:00
abstract::INNO-LiPA and PapType human papillomavirus (HPV) genotyping assays were compared for detection of HPV genotypes on archival vulvar tissue. The INNO-LiPA assay detected 49 HPV-16 infections, compared with 47 detected by the PapType assay. The INNO-LiPA assay detected amplifiable DNA in 59 (91%) biopsy specimens, compar...
journal_title:Journal of clinical microbiology
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doi:10.1128/JCM.00516-11
更新日期:2011-11-01 00:00:00
abstract::To determine that susceptibility of AMPLICOR Chlamydia trachomatis PCR to inhibitory factors possibly present in cervical specimens, we obtained cervical specimens from 200 gynecology patients attending our outpatient clinic. The prevalence of C. trachomatis infection was 4.1%, as determined by cell culture. All AMPLI...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.34.12.3072-3074.1996
更新日期:1996-12-01 00:00:00
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.11.1.19-21.1980
更新日期:1980-01-01 00:00:00
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
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journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.19.4.538-540.1984
更新日期:1984-04-01 00:00:00
abstract::Antibodies to human papilloma virus (HPV) type 16 (HPV-16) E6 and E7 proteins in serum are markers for HPV-associated invasive cervical carcinoma. We compared two assays, a radioimmunoprecipitation assay with in vitro-translated HPV-16 E6 and E7 proteins and an enzyme-linked immunosorbent assay (ELISA) with E6 and E7 ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章,多中心研究
doi:10.1128/JCM.32.9.2216-2220.1994
更新日期:1994-09-01 00:00:00
abstract::Rapid tests for detection of methicillin-resistant Staphylococcus aureus (MRSA) carriage are important to limit the transmission of MRSA in the health care setting. We evaluated the performance of the BD GeneOhm MRSA real-time PCR assay using a diverse collection of MRSA isolates, mainly from Copenhagen, Denmark, but ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02153-08
更新日期:2009-05-01 00:00:00
abstract::The modification of an auxanographic method used in yeast species identification to determine potassium nitrate (KNO3) assimilation resulted in a simple and inexpensive KNO3 assimilation test medium. The medium provided accurate and reliable results in less than 24 h. ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.2.366-368.1988
更新日期:1988-02-01 00:00:00
abstract::A combined method of the Limulus amebocyte lysate (LAL) test and the enzyme-linked immunosorbent assay for quantitation of endotoxin was developed based on our observation that the antigenicity of coagulogen, a major protein in LAL, was lost when LAL reacted with endotoxin as shown by immunoblotting. Determination of ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.8.1464-1470.1988
更新日期:1988-08-01 00:00:00
abstract::The protease phenotypes expressed by isolates of Pseudomonas aeruginosa from cystic fibrosis (CF) patients were evaluated. The majority of isolates tested produced elastase (65%) or alkaline protease (64%) or both. The mucoid phenotype expressed by many CF isolates of P. aeruginosa did not absolutely restrict the expr...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.17.1.55-59.1983
更新日期:1983-01-01 00:00:00
abstract::From January 2011 to December 2013, a total of 262 samples, from 188 patients suspected of having syphilis were tested for the presence of treponemal DNA by PCR amplification of five chromosomal loci, including the polA (TP0105), tmpC (TP0319), TP0136, TP0548, and 23S rRNA genes. Altogether, 146 samples from 103 patie...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01292-14
更新日期:2014-10-01 00:00:00
abstract::The taxonomic status and structure of Streptococcus dysgalactiae have been the object of much confusion. Bacteria belonging to this species are usually referred to as Lancefield group C or group G streptococci in clinical settings in spite of the fact that these terms lack precision and prevent recognition of the exac...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.05900-11
更新日期:2012-01-01 00:00:00
abstract::The capacity of aerobic and anaerobic bacteria to survive on cotton swabs placed into a dry gassed-out CO2-filled tube (DGT), dry sterile aerobic tube (DAT), and a tube containing a modified Stuarts' transport medium (MST), was assessed. Pseudomonas aeruginosa increased in numbers by 2 and 3 logs when stored in MST a...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.1.2.196-200.1975
更新日期:1975-02-01 00:00:00
abstract::The effect of supplementing nutrient substrate with various combinations of concentrations of oleic and linoleic acids on the growth of 11 strains of Staphylococcus aureus was assessed. Whereas increasing the concentration of linoleic acid by itself greatly diminished the growth of all 11 strains, concomitant increase...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.18.2.408-415.1983
更新日期:1983-08-01 00:00:00