Conducting Meta-Analyses in R with the metafor Package

The metafor package provides functions for conducting meta-analyses in R. The package includes functions for fitting the meta-analytic fixed- and random-effects models and allows for the inclusion of moderators variables (study-level covariates) in these models. Meta-regression analyses with continuous and categorical moderators can be conducted in this way. Functions for the Mantel-Haenszel and Peto's one-step method for meta-analyses of 2 x 2 table data are also available. Finally, the package provides various plot functions (for example, for forest, funnel, and radial plots) and functions for assessing the model fit, for obtaining case diagnostics, and for tests of publication bias.

Integrated systems analysis reveals a molecular network underlying autism spectrum disorders.

Autism is a complex disease whose etiology remains elusive. We integrated previously and newly generated data and developed a systems framework involving the interactome, gene expression and genome sequencing to identify a protein interaction module with members strongly enriched for autism candidate genes. Sequencing of 25 patients confirmed the involvement of this module in autism, which was subsequently validated using an independent cohort of over 500 patients. Expression of this module was dichotomized with a ubiquitously expressed subcomponent and another subcomponent preferentially expressed in the corpus callosum, which was significantly affected by our identified mutations in the network center. RNA-sequencing of the corpus callosum from patients with autism exhibited extensive gene mis-expression in this module, and our immunochemical analysis showed that the human corpus callosum is predominantly populated by oligodendrocyte cells. Analysis of functional genomic data further revealed a significant involvement of this module in the development of oligodendrocyte cells in mouse brain. Our analysis delineates a natural network involved in autism, helps uncover novel candidate genes for this disease and improves our understanding of its molecular pathology

Word statistics in Blogs and RSS feeds: Towards empirical universal evidence

We focus on the statistics of word occurrences and of the waiting times between such occurrences in Blogs. Due to the heterogeneity of words' frequencies, the empirical analysis is performed by studying classes of "frequently-equivalent" words, i.e. by grouping words depending on their frequencies. Two limiting cases are considered: the dilute limit, i.e. for those words that are used less than once a day, and the dense limit for frequent words. In both cases, extreme events occur more frequently than expected from the Poisson hypothesis. These deviations from Poisson statistics reveal non-trivial time correlations between events that are associated with bursts of activities. The distribution of waiting times is shown to behave like a stretched exponential and to have the same shape for different sets of words sharing a common frequency, thereby revealing universal features.Comment: 16 pages, 6 figure

Stated belief and play in normal form games

Using data on one-shot games, we investigate the assumption that players respond to underlying expectations about their opponent�s behavior. In our laboratory experiments, subjects play a set of 14 two-person 3x3 games, and state first order beliefs about their opponent�s behavior. The sets of responses in the two tasks are largely inconsistent. Rather, we find evidence that the subjects perceive the games differently when they (i) choose actions, and (ii) state beliefs � they appear to pay more attention to the opponent�s incentives when they state beliefs than when they play the games. On average, they fail to best respond to their own stated beliefs in almost half of the games. The inconsistency is confirmed by estimates of a unified statistical model that jointly uses the actions and the belief statements. There, we can control for noise, and formulate a statistical test that rejects consistency. Effects of the belief elicitation procedure on subsequent actions are mostly insignificant