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1 145 protocols using stata version 11

1

Multidrug-Resistant Tuberculosis Epidemiology

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Data was double entered into EpiData (Odense, Denmark) from paper records and statistical analyses were done using Stata version 11.0 (College Station, TX, USA). Data was analysed using commands in Stata version 11.0 (College Station, TX, USA) software which takes into account the cluster sampling design. We first described the demographic and clinical characteristics of study participants. We then reviewed the bacteriological results and used a chi square test, adjusted for clustering by hospital, to test for differences in the proportion of TB that was resistant by proximity to CoSH and by Phase of the study. Finally, we identified factors independently associated with MDR-TB among those with detected TB using multivariate logistic regression. Our multivariate model initially included all factors. Factors were eliminated one by one starting with the least significant until all factors remaining were significant (p-value<0.05).
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2

Conditional Logistic Regression for Case-Control Studies

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Descriptive statistics were calculated; normally distributed variables were expressed as mean ± standard deviation, and those not normally distributed were expressed as median (range). Categorical data were expressed as frequencies; values with a nonlinear distribution were analyzed categorically. Fisher's exact test was used to compare categorical variables. Conditional univariate logistic regression was used to estimate matched odds ratios and 95% confidence intervals (CI) relating individual blood variables to being diagnosed as a case versus a control. For histopathologic classification, the odds ratio was inestimable using conventional conditional logistic regression, and therefore exact conditional logistic regression was used. A specification link test for single‐equation models (link test, Stata, version 11; StataCorp, College Station, Texas) was used to screen for specification errors when using linear quantitative variables. All analyses were performed using commercial statistical software (Stata, version 11; StataCorp).
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3

Mixed-effects analysis of repeated measures

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Intention-to-treat analyses will be performed by mixed-effects regression with full information maximum likelihood estimation using Stata version 11.2 software (StataCorp, College Station, TX, USA), specifying four repeated measurements (level 1) nested within individuals (level 2) who are then nested within centers/clinics (level 3). Imputation of missing data is not needed, because the conditional distribution of missing data in the whole dataset is incorporated into the estimation of parameters in full information models [67 ]. Within-person covariance over time will be specified using an unstructured model. The intercepts and effect of time will be specified to vary randomly at the participant level, whereas the effect of treatment will be specified as fixed effects. Cohen’s d, calculated by taking the difference of the adjusted means between two comparison groups and dividing it by the pooled SD, will be used to estimate the effect size of treatment.
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4

Comparison of MACE Outcomes in Men and Women

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Continuous variables were compared by using two-sample t tests or the Wilcoxon rank-sum test if nonnormally distributed. Categorical variables were compared by using the Pearson χ2 test or the Fisher exact for small cell counts less than six. Survival curves were visualized by using Kaplan-Meier curves and were compared by using log-rank tests. Annual event rates were derived by dividing the number of events by person-years. Predictors of MACE, MI, and death were assessed by using Cox regression modeling, after verifying the assumption of proportional hazards with Schoenfeld residuals. Men and women were matched for risk factors (age, hypertension, high cholesterol, diabetes, smoking, family history, chest pain symptom presence, and log SIS, where the SIS was log-transformed toward normality and then back-transformed into original units for purposes of reporting; matching was done by using the 1:1 Mahalanobis nearest-neighbor algorithm within a caliper of 0.01) and evaluated by using standardized differences (19 ,20 (link)). A post hoc analysis with our observed MACE event rates show 80% power to detect a minimum HR of 1.5 with 11 462 patients and 1.7 in men or women subgroups. All data were analyzed by using Stata version 11.2 software (www.statacorp.com). A P value less than .05 was considered to indicate a significant difference.
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Interrater Reliability Analysis in Study

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Statistical analysis for the objective analyses was performed using Stata version 11.2 software (Stata Corp., College Station, TX, USA) with a Wilcoxon signed-rank test. The interrater reliability for the subjective rater analysis was performed using Cohen's Kappa statistic. Statistical significance for this study was set at p < 0.05.
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6

Symptoms and COVID-19 Outcomes in HCWs

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Wilcoxon rank-sum tests were used to identify associations between symptoms and illness duration. Symptoms significantly associated with illness duration (P < .05) were then used in a multivariable tobit regression model, followed by backward variable selection (P < .05) adjusted for age. Because all symptomatic HCWs were required to isolate for a minimum of 7 days, a tobit model accounted for the potential left censorship.
Likewise, χ2 tests were used to identify associations between symptoms and positive PCR tests, and separately, reactive IgG antibody tests. Symptoms significantly associated with either test in these bivariate analyses (P < .05) were included in 2 separate multivariable logistic regression models, followed by backward variable selection (P < .05) to identify the symptoms associated with positive PCR or reactive IgG antibody tests.
Lastly, we examined the frequencies of the PCR and IgG antibody test results. In this analysis, we included HCWs who had had both tests done, with the IgG antibody test having taken place at any point after the PCR test.
This study was approved by the Montefiore/Einstein Institutional Review Board. All analyses were performed using Stata version 11.2 software (StataCorp, College Station, TX).
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7

Survival Analysis of Metastasectomy and TKI

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PFS and OS were estimated by the Kaplan-Meier method.29 PFS was calculated from both date of metastasectomy and start date of TKI to date of documented radiographic disease recurrence. OS was calculated from both date of metastasectomy and date of TKI initiation to date of death or last follow-up. Regional recurrence (RR) was defined as those occurring within the pelvis, peritoneum (excluding the liver), or retroperitoneum and distant metastasis (DM) was defined as those occurring outside these regions (ie. lung, liver, abdominal wall). The log-rank test was used to determine statistical differences in OS and PFS. Univariate and multivariate regression analysis was performed using a Cox proportional hazards model. Variables that were statistically significant on univariate analysis were included in the corresponding multivariate analyses. A P value of less than 0.05 was considered statistically significant, and statistical calculations and data analysis were performed using Stata version 11.2 software (College Station, Texas).
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8

Predictive Modeling of AKI Biomarkers

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Data were analyzed using STATA version 11.2 software (Stata Corporation, College Station, TX, USA). Continuous variables were summarized using median and interquartile range (IQR) and categorical variables as numbers (%). The Kruskal-Wallis test and χ2 test were used for comparison between continuous and categorical variables, respectively, across multiple groups. Mann-Whitney test and Fisher's exact test or χ2 test were used for two-group comparison between continuous and categorical variables, respectively. The predictive performance for AKI was evaluated by calculating the area under the ROC curve for each urinary biomarker at different time-points. The relationships of [TIMP2]·[IGFBP7], NGAL, and cystatin C with AKI and nonrenal factors were investigated by multivariate linear regression analyses. The following predictor variables were considered: age, gender, APACHE II score, AKI within 48 hours, comorbidities, and admission diagnosis. Predictor variables were included in the multivariate models if they were statistically significant at P < 0.1 in the univariate analyses. Two-sided P values below 0.05 were considered statistically significant in the final analyses.
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9

Evaluating Overall Survival in Treatment Regimens

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The endpoints of this study was to evaluate overall survival (OS). The OS time was measured from the starting date of treatment. Statistical tests were done with Stata, version 11.2 software. The Kaplan-Meier method was used to calculate the OS, and the curves were compared with log–rank tests. Multivariate Cox regression analysis was used to identify the independent predictors of OS. All significant factors in univariate analysis were further tested in the multivariate analysis. Propensity-score matching (PSM) and landmark analysis requiring a minimum of 8 months OS were each performed in sensitivity studies to further adjust for confounding. All statistical tests were two-sided, and P values < 0.05 were considered to indicate statistical significance.
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10

Student's t-test Analysis of Groups

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Student's t-test was used to examine the differences between groups using STATA version 11.0 software (StataCorp LP, College Station, TX, USA). P<0.05 was considered to indicate a statistically significant difference. Results are expressed as the mean ± standard deviation of three independent experiments.
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