Development and testing of a general amber force field
Abstract We describe here a general Amber force field (GAFF) for organic molecules. GAFF is designed to be compatible with existing Amber force fields for proteins and nucleic a...
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3,861 publications
The Structure and Function of Complex Networks
Inspired by empirical studies of networked systems such as the Internet,\nsocial networks, and biological networks, researchers have in recent years\ndeveloped a variety of tech...
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
PhyML is a phylogeny software based on the maximum-likelihood principle. Early PhyML versions used a fast algorithm performing nearest neighbor interchanges to improve a reasona...
GROMACS: Fast, flexible, and free
Abstract This article describes the software suite GROMACS (Groningen MAchine for Chemical Simulation) that was developed at the University of Groningen, The Netherlands, in the...
Prokka: rapid prokaryotic genome annotation
Abstract Summary: The multiplex capability and high yield of current day DNA-sequencing instruments has made bacterial whole genome sequencing a routine affair. The subsequent d...
Agency Costs of Free Cash Flow, Corporate Finance, and Takeovers
The interests and incentives of managers and shareholders conflict over such issues as the optimal size of the firm and the payment of cash to shareholders. These conflicts are ...
The magical number seven, plus or minus two: Some limits on our capacity for processing information.
First, the span of absolute judgment and the span of immediate memory impose severe limitations on the amount of information that we are able to receive, process, and remember. ...
CAPITAL ASSET PRICES: A THEORY OF MARKET EQUILIBRIUM UNDER CONDITIONS OF RISK*
One of the problems which has plagued those attempting to predict the behavior of capital markets is the absence of a body of positive microeconomic theory dealing with conditio...
Compressed sensing
Suppose x is an unknown vector in Ropfm (a digital image or signal); we plan to measure n general linear functionals of x and then reconstruct. If x is known to be compressible ...
The magical number seven, plus or minus two: Some limits on our capacity for processing information.
First, the span of absolute judgment and the span of immediate memory impose severe limitations on the amount of information that we are able to receive, process, and remember. ...
Towards Learning Terminological Concept Systems from Multilingual Natural Language Text
Terminological Concept Systems (TCS) provide a means of organizing, structuring and representing domain-specific multilingual information and are important to ensure terminologi...
The variant call format and VCFtools
Abstract Summary: The variant call format (VCF) is a generic format for storing DNA polymorphism data such as SNPs, insertions, deletions and structural variants, together with ...