Diagnostic test accuracy: application and practice using R software / 한국역학회지

The objective of this paper is to describe general approaches of diagnostic test accuracy (DTA) that are available for the quantitative synthesis of data using R software. We conduct a DTA that summarizes statistics for univariate analysis and bivariate analysis. The package commands of R software were “metaprop” and “metabin” for sensitivity, specificity, and diagnostic odds ratio; forest for forest plot; reitsma of “mada” for a summarized receiver-operating characteristic (ROC) curve; and “metareg” for meta-regression analysis. The estimated total effect sizes, test for heterogeneity and moderator effect, and a summarized ROC curve are reported using R software. In particular, we focus on how to calculate the effect sizes of target studies in DTA. This study focuses on the practical methods of DTA rather than theoretical concepts for researchers whose fields of study were non-statistics related. By performing this study, we hope that many researchers will use R software to determine the DTA more easily, and that there will be greater interest in related research.

Diagnostic test accuracy: application and practice using R software / 한국역학회지

The objective of this paper is to describe general approaches of diagnostic test accuracy (DTA) that are available for the quantitative synthesis of data using R software. We conduct a DTA that summarizes statistics for univariate analysis and bivariate analysis. The package commands of R software were “metaprop” and “metabin” for sensitivity, specificity, and diagnostic odds ratio; forest for forest plot; reitsma of “mada” for a summarized receiver-operating characteristic (ROC) curve; and “metareg” for meta-regression analysis. The estimated total effect sizes, test for heterogeneity and moderator effect, and a summarized ROC curve are reported using R software. In particular, we focus on how to calculate the effect sizes of target studies in DTA. This study focuses on the practical methods of DTA rather than theoretical concepts for researchers whose fields of study were non-statistics related. By performing this study, we hope that many researchers will use R software to determine the DTA more easily, and that there will be greater interest in related research.

Concordancia entre los índices de masa corporal nacional e internacional, como predictores de la composición corporal en adolescentes premenárquicas y menárquicas / Concordance between national and international bodymass index as a predictor of body composition in premenarcheal and menarcheal adolescents

El uso de referencias nacionales e internacionales para diagnosticar el estado nutricional es una discusión de larga data, debido a las discrepancias en los resultados. En este trabajo se contrastó la capacidad del índice de masa corporal (IMC) para predecir composición corporal, diagnosticada por área grasa (AG) y/o área muscular (AM), utilizando la referencia nacional (ENCDH) vs la internacional (OMS, 2007). Este estudio comparativo fue aplicado sobre una subpoblación de la base de datos de la Unidad de Bioantropología, Actividad Física y Salud, de 364 adolescentes femeninas, escolarizadas, entre 10 y 15 años, de distintas regiones venezolanas. Se calculó el coeficiente Kappa ponderado para medir la concordancia del IMC por ambas referencias, se determinó la precisión del IMC en cada caso, utilizando medidas de sensibilidad y especificidad. Se estimaron razones de verosimilitud diagnóstica para comparar el desempeño de ambos clasificadores de composición corporal. El índice Kappa ponderado mostró mayor concordancia en AG (0,64) que en AM (0,51). La presencia de la menarquia incrementó las concordancias: AG (0,63) y AM (0,59) con respecto a las pre-menárquicas: AG (0,46) y AM (0,35). Las razones de verosimilitud diagnóstica positivas y negativas resultaron consistentemente mayores que la unidad, tanto para la predicción de AM como AG, siendo siempre superiores en ENCDH que en OMS. Estos hallazgos muestran que en adolescentes pre-menárquicas la referencia ENCDH es más indicativa para el déficit y el exceso en área muscular, que la OMS, mientras que esta última es más indicativa del exceso en área grasa en adolescentes pre-menárquicas(AU)

Use of national and international references for the diagnosis of nutritional status is controversial. Concordance between national and international body mass index as predictors of body composition in 364 premenarcheal and menarcheal female adolescents (ages 10-15), classified according to occurrence of menarche, that were part of the database of the bioanthropology, physical activity and health unit, were evaluated. This study compares the capacity of body mass index (BMI) to predict body composition, diagnosed by upper arm fat area (UFA) and/ or upper arm muscle area (UMA), using national reference (ENCDH) vs International (WHO, 2007). The weighted Kappa coefficient was applied to evaluate the concordance between BMI by national and international references, as well as to assess the precision of BMI by means of sensibility and specificity. Additionally, diagnostic verisimilitude ratio was estimated to measure the efficiency of both references in the classification of body composition. The weighted Kappa showed greater concordance in UFA (0.64) versus UMA (0.51). The presence of menarche increased the concordances: UFA (0.63) and UMA (0.59) with respect to premenarcheal girls: UFA (0.46) and UMA (0.35). The positive and negative diagnostic likelihood ratios were consistently greater than one, for fat and muscle area, especially when using ENCDH reference. The findings suggest that prevalence of deficit or excess in UMA was more sensitive with the BMI_ENCDH than with the BMI_WHO, in premenarcheal girls. On the other hand, WHO was more sensitive to predict UFA excess in the same group(AU)

Real-time PCR assay for the diagnosis of pleural tuberculosis / Reacción en cadena de la polimerasa en tiempo real para el diagnóstico de tuberculosis pleural

Abstract Introduction: The diagnosis of pleural tuberculosis requires an invasive and time-consuming reference method. Polymerase chain reaction (PCR) is rapid, but validation in pleural tuberculosis is still weak. Objective: To establish the operating characteristics of real-time polymerase chain reaction (RT-PCR) hybridization probes for the diagnosis of pleural tuberculosis. Methods: The validity of the RT-PCR hybridization probes was evaluated compared to a composite reference method by a cross-sectional study at the Hospital Universitario de la Samaritana. 40 adults with lymphocytic pleural effusion were included. Pleural tuberculosis was confirmed (in 9 patients) if the patient had at least one of three tests using the positive reference method: Ziehl-Neelsen or Mycobacterium tuberculosis culture in fluid or pleural tissue, or pleural biopsy with granulomas. Pleural tuberculosis was ruled out (in 31 patients) if all three tests were negative. The operating characteristics of the RT-PCR, using the Mid-P Exact Test, were determined using the OpenEpi 2.3 Software (2009). Results: The RT-PCR hybridization probes showed a sensitivity of 66.7% (95% CI: 33.2%-90.7%) and a specificity of 93.5% (95% CI: 80.3%-98.9%). The PPV was 75.0% (95% CI: 38.8%-95.6%) and a NPV of 90.6% (95% CI: 76.6%-97.6%). Two false positives were found for the test, one with pleural mesothelioma and the other with chronic pleuritis with mesothelial hyperplasia. Conclusions: The RT-PCR hybridization probes had good specificity and acceptable sensitivity, but a negative value cannot rule out pleural tuberculosis.

Resumen Introducción: El diagnóstico de tuberculosis pleural requiere un método de referencia invasivo y demorado. La reacción en cadena de la polimerasa es rápida, pero su validación en tuberculosis pleural aún es débil. Objetivo: Establecer las características operativas de la reacción en cadena de la polimerasa en tiempo real (RT-PCR) sondas de hibridación para el diagnóstico de tuberculosis pleural. Métodos: Se evaluó la validez de la RT-PCR sondas de hibridación comparada con un método de referencia compuesto mediante un estudio transversal en el Hospital Universitario de la Samaritana. Se incluyeron 40 adultos con derrame pleural linfocitario. Tuberculosis pleural fue confirmada (en 9 pacientes) si el paciente tenía mínimo una de tres pruebas del método de referencia positiva: Ziehl-Neelsen o cultivo para Mycobacterium tuberculosis en líquido o tejido pleural, o biopsia pleural con granulomas; se descartó tuberculosis pleural (en 31 pacientes) si las tres pruebas eran negativas. Se determinaron las características operativas de la RT-PCR, mediante la Prueba Mid-P Exact, con el Software OpenEpi 2.3 (2009). Resultados: La RT-PCR sondas de hibridación mostró una sensibilidad del 66.7% (IC 95%: 33.2%-90.7%) y una especificidad del 93.5% (IC 95%: 80.3%-98.9%). El VPP fue de 75.0% (IC 95%: 38.8%-95.6%) y un VPN de 90.6% (IC 95%: 76.6%-97.6%). Se encontraron dos falsos positivos para la prueba, uno con mesotelioma pleural y otro con pleuritis crónica con hiperplasia mesotelial. Conclusiones: La RT-PCR sondas de hibridación tuvo una buena especificidad y una aceptable sensibilidad, pero un valor negativo no puede descartar tuberculosis pleural.

Approach To Symmetrical Polyarthritis with Focus on Rheumatoid Arthritis

Symmetrical polyarthritis is not uncommon as a presenting clinical problem in the primary care setting. The ability to differentiate inflammatory from non-inflammatory, articular from peri-articular joint pain will help the Family Physician (FP) to further narrow the diagnosis of joint pain, and provide early referral and effective treatment when necessary. Integrating clinical reasoning with the concept of likelihood ratios in the process of diagnosis, FPs can also easily differentiate the various diagnoses of symmetrical polyarthritis, including rheumatoid arthritis (RA). There is also increasing evidence that shared care of patients with rheumatoid arthritis can be done successfully and safely between FPs and rheumatologists.

Clinical analysis of 90 cases with pleural tuberculosis / 中国综合临床

Objective To investigate the clinical diagnostic evidences of pleural tuberculosis (PT).Methods One hundred and eighty patients with pleural effussion, whom were admited into our hospital from December 2007 to December 2009 ,were enrolled into this study. The clinical data of patients confirmed with PT ( n = 90) or Non-PT ( n = 90) were analyzed retrospectively. The likelihood ratios( LR), sensitivity, specificity,positive predictive value,and nagative predictive value of six indices including pleural ADA, IFN-γ, sIL-2R ,TB-antibody in blood and pleural effusion, age and fever status were calculated. Results The variable with the hightest LR+ was ADA optimal threshold, followed by TB-antibody, IFN-γ, age, sIL-2R, fever status, If all six variables reached the optimal threshold,the probabilities of PT exceeded 99.9%. However,if all variables didn't reached the optimal threshold, the probabilities of PT were less than 1%. Among all the six variables, any four or over four variables reached the optimal threshold, the probabilities of PT exceeded 97%. Conclusion The combination use of these six variables can aid the clinical analysis, early detection, and therapy instruction,complication prevention of PT.

Uso de tests diagnósticos en la práctica clínica (Parte 2): Aplicación clínica y utilidad de un test diagnóstico / Clinical use of diagnostic tests (Part 2): Clinical application and usefulness of a diagnostic test

La utilidad clínica de un test diagnóstico se califica de acuerdo a la magnitud en la que éste contribuye a modificar la probabilidad pre test de ocurrencia de un determinado diagnóstico. Para tales efectos, el cálculo y aplicación de razones de verosimilitud (likelihood ratios, LR) constituye una herramienta de gran utilidad. Cada resultado posible de un test posee un LR, a partir del cual es posible estimar cuánto aumenta o disminuye la probabilidad pre test, permitiendo al clínico descartar un diagnóstico, confirmarlo o bien continuar su investigación mediante la solicitud de nuevos exámenes. En la primera parte del presente artículo se analizaron las propiedades de un test diagnóstico (validez, reproducibilidad y seguridad). En esta segunda parte se ilustra el sustrato teórico subyacente al concepto de LR, se explica su metodología de cálculo y se describe su aplicación clínica.

The clinical usefulness of a diagnostic test is determined by the extent to which it helps to modify the pretest probability of occurrence of a certain diagnosis. For this purpose, the calculation and application of likelihood ratios (LR) is a very useful tool. Every possible result of a test has a LR, which allows for an estimation of the magnitude by which the pretest probability increases or decreases, thereby helping the physician rule out, confirm, or continue investigating a diagnosis with new tests. In the first part of this article the properties of a diagnostic test (validity, reproducibility and safety) were analyzed. This second part illustrates the theoretical background underlying the concept of LR, explains the methodology for calculating them and describes their clinical application.