Search results for "genetics [Transcriptome]"

A Log-Rank Test for Equivalence of Two Survivor Functions

1993

We consider a hypothesis testing problem in which the alternative states that the vertical distance between the underlying survivor functions nowhere exceeds some prespecified bound delta0. Under the assumption of proportional hazards, this hypothesis is shown to be (logically) equivalent to the statement [beta[log(1 + epsilon), where beta denotes the regression coefficient associated with the treatment group indicator, and epsilon is a simple strictly increasing function of delta. The testing procedure proposed consists of carrying out in terms of beta (i.e., the standard Cox likelihood estimator of beta) the uniformly most powerful level alpha test for a suitable interval hypothesis about…

Testing for homogeneity in meta-analysis I. The one-parameter case: standardized mean difference.

2010

Meta-analysis seeks to combine the results of several experiments in order to improve the accuracy of decisions. It is common to use a test for homogeneity to determine if the results of the several experiments are sufficiently similar to warrant their combination into an overall result. Cochran's Q statistic is frequently used for this homogeneity test. It is often assumed that Q follows a chi-square distribution under the null hypothesis of homogeneity, but it has long been known that this asymptotic distribution for Q is not accurate for moderate sample sizes. Here, we present an expansion for the mean of Q under the null hypothesis that is valid when the effect and the weight for each s…

Morphology changes induced by intercellular gap junction blocking: A reaction-diffusion mechanism.

2021

Complex anatomical form is regulated in part by endogenous physiological communication between cells; however, the dynamics by which gap junctional (GJ) states across tissues regulate morphology are still poorly understood. We employed a biophysical modeling approach combining different signaling molecules (morphogens) to qualitatively describe the anteroposterior and lateral morphology changes in model multicellular systems due to intercellular GJ blockade. The model is based on two assumptions for blocking-induced patterning: (i) the local concentrations of two small antagonistic morphogens diffusing through the GJs along the axial direction, together with that of an independent, uncouple…

Functional Data Analysis with R and Matlab by RAMSAY, J. O., HOOKER, G., and GRAVES, S.

2010

On the function of modified nucleosides in the RNA world.

1998

Presumably ribosome and transfer RNA (tRNA) evolved from a pre-existing function in the RNA stage of life and were secondarily adapted for protein synthesis. Various possible initial functions of the primitive ribosome (protoribosome) have been suggested. The initial function of the primitive ribosome and primitive genetic translation would have been quite similar. It is possible that, initially, both functions coexisted in the protoribosome. Given that the three-dimensional structure of ribosomal RNAs shows only minor variations throughout time, it is, then, most likely that present ribosomes can still recall (remember) the most important parts of the mechanism of their initial function. A…

Improvements and Modifications of Tarone's Multiple Test Procedure for Discrete Data

1998

Tarone (1990, Biometrics 46, 515-522) proposed a multiple test procedure for discrete test statistics improving the usual Bonferroni procedure. However, Tarone's procedure is not monotone depending on the predetermined multiple level a. Roth (1998, Journal of Statistical Planning and Inference, in press) developed a monotone version of Tarone's procedure. We present a similar procedure that is both monotone and an improvement of Tarone's proposal. Based on this extension, we derive a step-down procedure that is a corresponding improvement of Holm's (1979, Scandinavian Journal of Statistics 6, 65-70) sequentially rejective procedure. It is shown how adjusted p-values can be computed for the …

Macroscopic Dynamic Effects of Migrations in Patchy Predator-prey Systems

1997

Abstract Different mechanisms at the behaviourial or physiological levels determine many properties of predator-prey systems at the population level. In this paper, we present a method of obtaining complex predator-prey dynamic models from models at a detailed, behaviourial level of description. We consider a multi-patch predator-prey model, the dynamics of which contains two time-scales: a fast one, associated with migrations between patches, and a slow one, on which interactions, reproduction and mortality occur. We use methods of perturbation theory in order to aggregate the multi-patch system into a reduced system of two differential equations for the total prey and predator populations…

Mixture Analysis in Biology: Scope and Limits

1998

On the dimerization of the primitive tRNAs: implications in the origin of genetic code.

2002

RNAs that catalyse their own aminoacylation have been recently selected in vitro. These findings support the notion that the primitive aminoacyl-tRNA synthetases may have been RNAs. In this paper, we propose a structural model for the first aminoacyl-tRNA synthetase consisting of an RNA complex formed between two primitive tRNA molecules through two intermolecular loop-strand interactions, and with implications in the origin of the genetic code.

Prokaryotic symbiotic consortia and the origin of nucleated cells: A critical review of Lynn Margulis hypothesis.

2021

The publication in the late 1960s of Lynn Margulis endosymbiotic proposal is a scientific milestone that brought to the fore of evolutionary discussions the issue of the origin of nucleated cells. Although it is true that the times were ripe, the timely publication of Lynn Margulis' original paper was the product of an intellectually bold 29-years old scientist, who based on the critical analysis of the available scientific information produced an all-encompassing, sophisticated narrative scheme on the origin of eukaryotic cells as a result of the evolution of prokaryotic consortia and, in bold intellectual stroke, put it all in the context of planetary evolution. A critical historical reas…