20 papers · ranked by Valyu relevance
Markus Neuhäuser, Frank Bretz
Background Adaptive designs are becoming increasingly important in clinical research. One approach subdivides the study into several (two or more) stages and combines the p-values of the different stages using Fisher's combination test. Methods Alternatively to Fisher's test, the recently proposed truncated product…
Rebecca J. Thrush, Devkee M. Vadukul, Francesco A. Aprile
α-Synuclein is a key protein of the nervous system, which regulates the release and recycling of neurotransmitters in the synapses. It is also involved in several neurodegenerative conditions, including Parkinson’s disease and Multiple System Atrophy, where it forms toxic aggregates. The N-terminus of α-synuclein is of…
Andrea Caliciotti, Giovanni Fasano, Stephen G. Nash, Massimo Roma
In this paper, we report data and experiments related to the research article entitled “An adaptive truncation criterion, for linesearch-based truncated Newton methods in large scale nonconvex optimization” by Caliciotti et al. [1]. In particular, in Caliciotti et al. [1], large scale unconstrained optimization…
Authors not listed
Quantities calculated from molecular simulations are often subject to an initial bias due to unrepresentative starting configurations. Initial data are usually discarded to reduce bias. Chodera's method for automated truncation point selection [J. Chem. Theory Comput. 2016, 12, 4, 1799–1805] is popular but has not been…
Franziska Henrich, Karl Christoph Klauer
Reaction time data in psychology are frequently censored or truncated. For example, two-alternative forced-choice tasks that are implemented with a response window or response deadline give rise to censored or truncated data. This must be accounted for in the data analysis, as important characteristics of the data…
Dara Bahri, Yi Tay, Che Zheng, Donald Metzler + 1 more
Work in information retrieval has traditionally focused on ranking and relevance: given a query, return some number of results ordered by relevance to the user. However, the problem of determining how many results to return, i.e. how to optimally truncate the ranked result list, has received less aention despite being…
M. Fakharany, Faten S. Alamri, Mohamed Abd Allah El‐Hadidy
Finding hidden/lost targets in a broad region costs strenuous effort and takes a long time. From a practical view, it is convenient to analyze the available data to exclude some parts of the search region. This paper discusses the coordinated search technique of a one-dimensional problem with a search region consisting…
Matthew Adams
Compositional data, which is data consisting of fractions or probabilities, is common in many fields including ecology, economics, physical science and political science. If these data would otherwise be normally distributed, their spread can be conveniently represented by a multivariate normal distribution truncated…
Matthew P. Adams, Miguel A. Fernández
Compositional data, which is data consisting of fractions or probabilities, is common in many fields including ecology, economics, physical science and political science. If these data would otherwise be normally distributed, their spread can be conveniently represented by a multivariate normal distribution truncated…
Andrea L. Higdon, Nathan H. Won, Gloria A. Brar
Genome-wide measurements of ribosome occupancy on mRNA transcripts have enabled global empirical identification of translated regions. These approaches have revealed an unexpected diversity of protein products, but high-confidence identification of new coding regions that entirely overlap annotated coding regions –…
Li Shao, Hongxi Li, Shuwei Li, Jianguo Sun
Background Failure time data frequently occur in many medical studies and often accompany with various types of censoring. In some applications, left truncation may occur and can induce biased sampling, which makes the practical data analysis become more complicated. The existing analysis methods for left-truncated…
Julia H Wildschutte, Alayna Baron, Nicolette M Diroff, Jeffrey M Kidd
Alu insertions have contributed to >11% of the human genome and ~30–35 Alu subfamilies remain actively mobile, yet the characterization of polymorphic Alu insertions from short-read data remains a challenge. We build on existing computational methods to combine Alu detection and de novo assembly of WGS data as a means…
Amrita Manna, Bhavnesh Jangid, Rakesh Pant, Achintya Kumar Dutta
We have implemented a reduced-cost partial triples correction scheme to the equation of motion coupled cluster method for core-ionization energy based on state-specific natural orbitals. The second-order Algebraic Diagrammatic Construction (ADC) method is used to generate the statespecific natural orbital, which…
Vincent Wagner, Benjamin Castellaz, Marco Oesting, Nicole Radde
The Chemical Master Equation is the most comprehensive stochastic approach to describe the evolution of a (bio-)chemical reaction system. Its solution is a time-dependent probability distribution on all possible configurations of the system. As the number of possible configurations is typically very large, the Master…
Ayush Pandey, Richard M. Murray
We present an automated model reduction algorithm that uses quasi-steady state approximation based reduction to minimize the error between the desired outputs. Additionally, the algorithm minimizes the sensitivity of the error with respect to parameters to ensure robust performance of the reduced model in the presence…
Authors not listed
High-level quantum mechanical (QM) simulations provide accurate electronic information of chemical systems but scale unfavourably with system size, making calculations of applied systems challenging. Hierarchical quantum mechanics in quantum mechanics embedding (QM/QM) addresses this issue by localising the highly…
Yingqi Tian, Zhaoxuan Xie, Zhen Luo, Haibo Ma
Using the mixed precision strategy to optimize quantum chemistry codes has been proved promising in saving computational cost and maintaining chemical accuracy. Here, an efficient mixed-precision density matrix renormalization group (DMRG) scheme, containing a two-level mixed-precision hierarchy, is developed and…
Annalisa Buffa, Riccardo Puppi, Rafael Vázquez
Trimming is a common operation in CAD, and, in its simplest formulation, consists in removing superfluous parts from a geometric entity described via splines (a spline patch). After trimming the geometric description of the patch remains unchanged, but the underlying mesh is unfitted with the physical object. We…
Robert T. Leverett, David N. Ruskin, Susan A. Masino
Accurate measurement of tree volume and associated carbon storage are necessary to determine ongoing sequestration as well as site productivity and changes in growth of individual tree species. Standard statistical methods vary their estimations of tree volume, and thus carbon storage and sequestration, particularly in…
Alena Antonova, Olga L. Ibryaeva
A new 1D search method is proposed for minimizing an arbitrary real valued function. The algorithm is a modification of the interval halving method which is based on dividing the interval of uncertainty by three points into four equal parts. The trichotomy method is based on dividing the interval by five points into…