Browse
Submit Data
Databases
API
Help

Dataset Information

35 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expected estimating equations via EM for proportional hazards regression with covariate misclassification.

ABSTRACT: In epidemiological and medical studies, covariate misclassification may occur when the observed categorical variables are not perfect measurements for an unobserved categorical latent predictor. It is well known that covariate measurement error in Cox regression may lead to biased estimation. Misclassification in covariates will cause bias, and adjustment for misclassification will be challenging when the gold standard variables are not available. In general, statistical modeling for misclassification is very different from that of the measurement error. In this paper, we investigate an approximate induced hazard estimator and propose an expected estimating equation estimator via an expectation-maximization algorithm to accommodate covariate misclassification when multiple surrogate variables are available. Finite sample performance is examined via simulation studies. The proposed method and other methods are applied to a human immunodeficiency virus clinical trial in which a few behavior variables from questionnaires are used as surrogates for a latent behavior variable.

SUBMITTER: Wang CY

PROVIDER: S-EPMC3590925 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The impact of covariate misclassification using generalized linear regression under covariate-adaptive randomization.

Project description:Under covariate adaptive randomization, the covariate is tied to both randomization and analysis. Misclassification of such covariate will impact the intended treatment assignment; further, it is unclear what the appropriate analysis strategy should be. We explore the impact of such misclassification on the trial's statistical operating characteristics. Simulation scenarios were created based on the misclassification rate and the covariate effect on the outcome. Models including unadjusted, adjusted for the misclassified, or adjusted for the corrected covariate were compared using logistic regression for a binary outcome and Poisson regression for a count outcome. For the binary outcome using logistic regression, type I error can be maintained in the adjusted model, but the test is conservative using an unadjusted model. Power decreased with both increasing covariate effect on the outcome as well as the misclassification rate. Treatment effect estimates were biased towards the null for both the misclassified and unadjusted models. For the count outcome using a Poisson model, covariate misclassification led to inflated type I error probabilities and reduced power in the misclassified and the unadjusted model. The impact of covariate misclassification under covariate-adaptive randomization differs depending on the underlying distribution of the outcome.

| S-EPMC5476516 | biostudies-literature

Latent Class Proportional Hazards Regression with Heterogeneous Survival Data.

Project description:Heterogeneous survival data are commonly present in chronic disease studies. Delineating meaningful disease subtypes directly linked to a survival outcome can generate useful scientific implications. In this work, we develop a latent class proportional hazards (PH) regression framework to address such an interest. We propose mixture proportional hazards modeling, which flexibly accommodates class-specific covariate effects while allowing for the baseline hazard function to vary across latent classes. Adapting the strategy of nonparametric maximum likelihood estimation, we derive an Expectation-Maximization (E-M) algorithm to estimate the proposed model. We establish the theoretical properties of the resulting estimators. Extensive simulation studies are conducted, demonstrating satisfactory finite-sample performance of the proposed method as well as the predictive benefit from accounting for the heterogeneity across latent classes. We further illustrate the practical utility of the proposed method through an application to a mild cognitive impairment (MCI) cohort in the Uniform Data Set.

| S-EPMC10786342 | biostudies-literature

Continuous-Time Proportional Hazards Regression for Ecological Monitoring Data.

Project description:We consider a continuous-time proportional hazards model for the analysis of ecological monitoring data where subjects are monitored at discrete times and fixed sites across space. Since the exact time of event occurrence is not directly observed, we rely on dichotomous event indicators observed at monitoring times to make inference about the model parameters. We use autoregression on the response at neighboring sites from a previous time point to take into account spatial dependence. The interesting fact is utilized that the probability of observing an event at a monitoring time when the underlying hazards is proportional falls under the class of generalized linear models with binary responses and complementary log-log link functions. Thus, a maximum likelihood approach can be taken for inference and the computation can be carried out using standard statistical software packages. This approach has significant computational advantages over some of the existing methods that rely on Monte Carlo simulations. Simulation experiments are conducted and demonstrate that our method has sound finite-sample properties. A real dataset from an ecological study that monitored bark beetle colonization of red pines in Wisconsin is analyzed using the proposed models and inference. Supplementary materials that contain technical details are available online.

| S-EPMC3849820 | biostudies-literature

On estimation of covariate-specific residual time quantiles under the proportional hazards model.

Project description:Estimation and inference in time-to-event analysis typically focus on hazard functions and their ratios under the Cox proportional hazards model. These hazard functions, while popular in the statistical literature, are not always easily or intuitively communicated in clinical practice, such as in the settings of patient counseling or resource planning. Expressing and comparing quantiles of event times may allow for easier understanding. In this article we focus on residual time, i.e., the remaining time-to-event at an arbitrary time t given that the event has yet to occur by t. In particular, we develop estimation and inference procedures for covariate-specific quantiles of the residual time under the Cox model. Our methods and theory are assessed by simulations, and demonstrated in analysis of two real data sets.

| S-EPMC4699877 | biostudies-literature

Weighted Estimating Equations for Additive Hazards Models with Missing Covariates.

Project description:This paper presents simple weighted and fully augmented weighted estimators for the additive hazards model with missing covariates when they are missing at random. The additive hazards model estimates the difference in hazards and has an intuitive biological interpretation. The proposed weighted estimators for the additive hazards model use incomplete data nonparametrically and have close-form expressions. We show that they are consistent and asymptotically normal, and are more efficient than the simple weighted estimator which only uses the complete data. We illustrate their finite-sample performance through simulation studies and an application to study the progression from mild cognitive impairment to dementia using data from the Alzheimer's Disease Neuroimaging Initiative as well as an application to the mouse leukemia study.

| S-EPMC6748657 | biostudies-literature

MODELLING COUNTY LEVEL BREAST CANCER SURVIVAL DATA USING A COVARIATE-ADJUSTED FRAILTY PROPORTIONAL HAZARDS MODEL.

Project description:Understanding the factors that explain differences in survival times is an important issue for establishing policies to improve national health systems. Motivated by breast cancer data arising from the Surveillance Epidemiology and End Results program, we propose a covariate-adjusted proportional hazards frailty model for the analysis of clustered right-censored data. Rather than incorporating exchangeable frailties in the linear predictor of commonly-used survival models, we allow the frailty distribution to flexibly change with both continuous and categorical cluster-level covariates and model them using a dependent Bayesian nonparametric model. The resulting process is flexible and easy to fit using an existing R package. The application of the model to our motivating example showed that, contrary to intuition, those diagnosed during a period of time in the 1990s in more rural and less affluent Iowan counties survived breast cancer better. Additional analyses showed the opposite trend for earlier time windows. We conjecture that this anomaly has to be due to increased hormone replacement therapy treatments prescribed to more urban and affluent subpopulations.

| S-EPMC4520441 | biostudies-literature

Cutpoint selection for discretizing a continuous covariate for generalized estimating equations.

Project description:We consider the problem of dichotomizing a continuous covariate when performing a regression analysis based on a generalized estimation approach. The problem involves estimation of the cutpoint for the covariate and testing the hypothesis that the binary covariate constructed from the continuous covariate has a significant impact on the outcome. Due to the multiple testing used to find the optimal cutpoint, we need to make an adjustment to the usual significance test to preserve the type-I error rates. We illustrate the techniques on one data set of patients given unrelated hematopoietic stem cell transplantation. Here the question is whether the CD34 cell dose given to patient affects the outcome of the transplant and what is the smallest cell dose which is needed for good outcomes.

| S-EPMC3359021 | biostudies-literature

High-dimensional, massive sample-size Cox proportional hazards regression for survival analysis.

Project description:Survival analysis endures as an old, yet active research field with applications that spread across many domains. Continuing improvements in data acquisition techniques pose constant challenges in applying existing survival analysis methods to these emerging data sets. In this paper, we present tools for fitting regularized Cox survival analysis models on high-dimensional, massive sample-size (HDMSS) data using a variant of the cyclic coordinate descent optimization technique tailored for the sparsity that HDMSS data often present. Experiments on two real data examples demonstrate that efficient analyses of HDMSS data using these tools result in improved predictive performance and calibration.

| S-EPMC3944969 | biostudies-literature

Comparison of Cox proportional hazards regression and generalized Cox regression models applied in dementia risk prediction.

Project description:IntroductionThe frequently used Cox regression applies two critical assumptions, which might not hold for all predictors. In this study, the results from a Cox regression model (CM) and a generalized Cox regression model (GCM) are compared.MethodsData are from the Survey of Health, Ageing and Retirement in Europe (SHARE), which includes approximately 140,000 individuals aged 50 or older followed over seven waves. CMs and GCMs are used to estimate dementia risk. The results are internally and externally validated.ResultsNone of the predictors included in the analyses fulfilled the assumptions of Cox regression. Both models predict dementia moderately well (10-year risk: 0.737; 95% confidence interval [CI]: 0.699, 0.773; CM and 0.746; 95% CI: 0.710, 0.785; GCM).DiscussionThe GCM performs significantly better than the CM when comparing pseudo-R2 and the log-likelihood. GCMs enable researcher to test the assumptions used by Cox regression independently and relax these assumptions if necessary.

| S-EPMC7293996 | biostudies-literature

Subgroup detection and sample size calculation with proportional hazards regression for survival data.

Project description:In this paper, we propose a testing procedure for detecting and estimating the subgroup with an enhanced treatment effect in survival data analysis. Here, we consider a new proportional hazard model that includes a nonparametric component for the covariate effect in the control group and a subgroup-treatment-interaction effect defined by a change plane. We develop a score-type test for detecting the existence of the subgroup, which is doubly robust against misspecification of the baseline effect model or the propensity score but not both under mild assumptions for censoring. When the null hypothesis of no subgroup is rejected, the change-plane parameters that define the subgroup can be estimated on the basis of supremum of the normalized score statistic. The asymptotic distributions of the proposed test statistic under the null and local alternative hypotheses are established. On the basis of established asymptotic distributions, we further propose a sample size calculation formula for detecting a given subgroup effect and derive a numerical algorithm for implementing the sample size calculation in clinical trial designs. The performance of the proposed approach is evaluated by simulation studies. An application to an AIDS clinical trial data is also given for illustration.

| S-EPMC5698151 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data