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Se 15

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The SE 15.1 is a laboratory equipment product offered by StataCorp. It serves as a core function, but a detailed description while maintaining an unbiased and factual approach is not available.

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17 protocols using se 15

1

Structural Equation Modeling in Stata

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All analyses were conducted using Stata SE 15.1. Factors with one or two measures were analysed as observed in the structural models, where indices are based on items with equal weight (Newsom, 2015). Factors with three or more items were analysed as latent factors, after testing for longitudinal metric invariance.
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2

Pancreatic Cancer RNA-seq Analysis Protocol

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Bulk RNA-seq data from two previously published resected primary PDAC cohorts with overall survival annotated were obtained (TCGA, n = 139; PanCuRx/ICGC, n = 168)8 (link),9 (link),39 (link). Patients with metastases or those that received neoadjuvant therapy were excluded from this analysis, yielding a total of 266 patients for further analysis. Gene expression levels from RNA-seq data was estimated using RSEM v1.3.3111 (link).
To score malignant and fibroblast cNMF programs in each tumor, we summed the expression of the top 200 genes for each program and z-score normalized the expression scores within the TCGA and PanCuRx/ICGC cohorts independently to account for batch effects. Age, sex, grade and stage were available for all patients. There were 154 progression events and 167 deaths. We consolidated some of the GEPs (TNF-NFκB, adhesive, interferon, and ribosomal into secretory;cycling (S), cycling (G2/M), and MYC into cycling) into aggregate programs to avoid overfitting a Cox proportional-hazards regression model with covariates. Multivariable Cox regression analyses was performed for time to progression (TTP) and overall survival (OS) (Stata/SE 15.1).
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3

SNHG15 Prognostic Meta-Analysis

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Statistical analysis was performed using RevMan 5.3.3 software and Stata SE 15.1 software. HR for death or recurrence and 95% CI were calculated between the high and low SNHG15 expression group. Patients with HR  ≥ 1 indicated a poor prognosis. Furthermore, the correlation between SNHG15 expression and clinicopathological characteristics was evaluated using OR and 95% CI. Heterogeneity between the included studies was determined by the I2 value from the Cochrane Q test and the P value from the chi-square test. If there was heterogeneity (I2 ≥ 50% or P < 0.05), the results were summarized using a random-effects model. Instead, fixed-effects models were used for analysis. Otherwise, a random-effects model was applied. Begg's funnel plot and Egger's test were used to assess publication bias. A sensitivity analysis was applied to assess the stability of the results. P ≤ 0.05 was considered statistically significant.
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4

Biomarker Profiling in Myotonic Dystrophy

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Descriptive results are expressed as means ± SD as well as the median and interval between the 1st and 4th quartile. Although this study is exploratory and primarily hypothesis generating, we performed preliminary analyses to compare biomarker profiles between CI vs. CU DM1 participants and to investigate associations between biomarker modalities. First, we performed uncorrected t tests on CSF and plasma biomarker levels between CI and CU participants. Second, we examined correlations between CSF and plasma biomarkers through Spearman rank correlation matrix using Graphpad Prism Software 8.4.2; correlations are represented on a heatmap. Spearman correlations between CSF and plasma biomarker levels were also explored (Stata SE 15.1). P values < 0.05 were considered significant.
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5

Statistical Analysis of SIRS and SYND1 Levels

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Data were analysed in Stata SE 15.1. Histograms were visually inspected for Gaussian distribution and the Shapiro-Wilk test was performed to evaluate data for normal distribution prior to statistical analysis. An ANOVA and linear regression analysis were used for the analysis for normally distributed data. Regarding SIRS scores, categorical data across the three groups were analysed using the Chi-Square test for independent outcomes. A Mann Whitney U test was subsequently performed to evaluate for significance regarding pairwise comparisons between the groups (data presented as median values with range). An unpaired, nonparametric t-test (Mann-Whitney) was used to determine whether SYND1 levels differed between survivors and non-survivors. A Chi-square test of independence was 20423306, 2023, 3, Downloaded from https://beva.onlinelibrary.wiley.com/doi/10.1111/evj.13862, Wiley Online Library on [28/08/2024]. See the Terms and Conditions (https://onlinelibrary.wiley.com/terms-and-conditions) on Wiley Online Library for rules of use; OA articles are governed by the applicable Creative Commons License performed to examine the relation between gender and group assignment. Unless noted otherwise, data are reported as mean ± standard deviation. Significance was set at P ≤ 0.05.
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Meta-analysis Protocol Utilizing Stata

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In this meta-analysis, the Stata SE 15.1 version was used. Each value of the results is represented by a 95 % confidence interval (95 %CI) in a random effects model. The heterogeneity between studies was assessed by the I2 (%) test. In Stata 12.0 software, Egger and Begg tests were used to find publication bias. P < 0.05 was considered to be a significant publication bias. And a sensitivity analysis was performed to test result stability.
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7

Malnutrition Severity and Treatment Outcomes

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Data analysis was conducted using Stata SE15.1.
Since we hypothesized that nutrition outcomes and resource use were likely to be correlated with disease severity and duration of treatment, as a proxy for malnutrition severity we divided patients into four categories according to their MUAC at treatment initiation: 120 ≤ MUAC < 125, 115 ≤ MUAC < 120, 110 ≤ MUAC < 115, MUAC < 110.
The cumulative proportion of children who recovered, defaulted or died by a certain time in treatment was calculated according to the initial MUAC status. For each category, we examined the average duration of treatment, the number of clinic visits, inpatient days, RUTF sachets and medications used. Total treatment cost in the study was calculated by multiplying the quantity of each resource used by its unit cost and summing across resource categories.
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8

Analyzing Nicotine Concentration Trends

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Total dollars and units were calculated. All unit sales analyses used Nielsen’s reported standardized measure of units, which takes into account varied package sizing. In order to incorporate the most current data available, sales were analyzed by each of the five 52-week periods from March 2, 2013 through February 24, 2018, and one 28-week period from February 24, 2018 to September 8, 2018. For simplicity, hereafter we refer to these time periods as 2013–2018.
Market share for each category is presented as a percentage, with the dollar (or unit) sales for that category divided by the total sales for the entire market. Additionally, a weighted mean nicotine concentration was calculated for each of the flavor, product type, and top brand categories. The weighted mean nicotine concentration in each category was calculated by using units sold as the weighting factor. Thus, the nicotine concentration for each product was multiplied by the number of units sold. The result was summed across all products in the category and then divided by the total number of units sold in that category. Changes over time in weighted mean nicotine concentration in products sold were tested using trend analyses. All analyses were completed using Stata SE 15.1.
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9

Assessing Missing Data in Intervention Study

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Missing data was primarily attributable to non-participation in follow-up assessments.
Participants who did not participate in one follow-up assessment were allowed to participate in all future follow-up assessments. Of the 560 women at baseline, 86% completed follow-up assessments at 3-month, 82% at 6-month, 81% at 9-month, and 83% at 12-month follow-up, respectively, comparable retention to previous interventions 19, 27 . To assess whether participants who attended each follow-up assessment differed from those who did not participate on 34 continuous and categorical covariates, Kruskal-Wallis tests were used for continuous variables and Pearson chi-squared tests for categorical variables. Of the 136 comparisons, 5 comparisons were significant at p ≤ 0.05 and 11 comparisons were p ≤ 0.1, within the range expected by chance, which is consistent with the data being missing completely at random (Supplementary Table 1). Despite lack of association of data missingness with observed data, a sensitivity analysis was conducted for the contingency that data were missing at random by repeating the analysis after multiple imputation with 10 imputations using Stata SE 15.1 (Appendix 1).
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10

Statistical Analysis of Continuous and Categorical Variables

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Statistical analysis was performed using Stata SE15.0. Continuous variables are presented as mean  ±  standard deviation if normally distributed and as median M (first quartile Q1, third quartile Q3) if not normally distributed. Continuous variables were compared using a t-test and chi-square test if they conformed to normality; if not, the rank-sum test was used. A chi-square or Fisher’s exact probability test was performed to compare categorical variables. Statistical significance was set at p < 0.05.
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