Dataset Information

Statistical inference for multi-pathogen systems.

ABSTRACT: There is growing interest in understanding the nature and consequences of interactions among infectious agents. Pathogen interactions can be operational at different scales, either within a co-infected host or in host populations where they co-circulate, and can be either cooperative or competitive. The detection of interactions among pathogens has typically involved the study of synchrony in the oscillations of the protagonists, but as we show here, phase association provides an unreliable dynamical fingerprint for this task. We assess the capacity of a likelihood-based inference framework to accurately detect and quantify the presence and nature of pathogen interactions on the basis of realistic amounts and kinds of simulated data. We show that when epidemiological and demographic processes are well understood, noisy time series data can contain sufficient information to allow correct inference of interactions in multi-pathogen systems. The inference power is dependent on the strength and time-course of the underlying mechanism: stronger and longer-lasting interactions are more easily and more precisely quantified. We examine the limitations of our approach to stochastic temporal variation, under-reporting, and over-aggregation of data. We propose that likelihood shows promise as a basis for detection and quantification of the effects of pathogen interactions and the determination of their (competitive or cooperative) nature on the basis of population-level time-series data.

SUBMITTER: Shrestha S

PROVIDER: S-EPMC3158042 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature

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Statistical inference for multi-pathogen systems.

Shrestha Sourya S King Aaron A AA Rohani Pejman P

PLoS computational biology 20110818 8

There is growing interest in understanding the nature and consequences of interactions among infectious agents. Pathogen interactions can be operational at different scales, either within a co-infected host or in host populations where they co-circulate, and can be either cooperative or competitive. The detection of interactions among pathogens has typically involved the study of synchrony in the oscillations of the protagonists, but as we show here, phase association provides an unreliable dyna ...[more]

PMID: 21876665

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Project description:Establishing the invariance property of an instrument (e.g., a questionnaire or test) is a key step for establishing its measurement validity. Measurement invariance is typically assessed by differential item functioning (DIF) analysis, i.e., detecting DIF items whose response distribution depends not only on the latent trait measured by the instrument but also on the group membership. DIF analysis is confounded by the group difference in the latent trait distributions. Many DIF analyses require knowing several anchor items that are DIF-free in order to draw inferences on whether each of the rest is a DIF item, where the anchor items are used to identify the latent trait distributions. When no prior information on anchor items is available, or some anchor items are misspecified, item purification methods and regularized estimation methods can be used. The former iteratively purifies the anchor set by a stepwise model selection procedure, and the latter selects the DIF-free items by a LASSO-type regularization approach. Unfortunately, unlike the methods based on a correctly specified anchor set, these methods are not guaranteed to provide valid statistical inference (e.g., confidence intervals and p-values). In this paper, we propose a new method for DIF analysis under a multiple indicators and multiple causes (MIMIC) model for DIF. This method adopts a minimal [Formula: see text] norm condition for identifying the latent trait distributions. Without requiring prior knowledge about an anchor set, it can accurately estimate the DIF effects of individual items and further draw valid statistical inferences for quantifying the uncertainty. Specifically, the inference results allow us to control the type-I error for DIF detection, which may not be possible with item purification and regularized estimation methods. We conduct simulation studies to evaluate the performance of the proposed method and compare it with the anchor-set-based likelihood ratio test approach and the LASSO approach. The proposed method is applied to analysing the three personality scales of the Eysenck personality questionnaire-revised (EPQ-R).

Dataset Information

Statistical inference for multi-pathogen systems.

Publications

Statistical inference for multi-pathogen systems.

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