Preprints (not yet peer-reviewed)

7 downloads
147 views

Pedigrees, though straightforward and versatile, lack the ability to tell us information about many individuals. Though numerical systems have been developed, there is currently no system to quantify the probability of a pedigree following certain inheritance systems....

["Bioinformatics","Genetics","Mathematical Biology","Statistics"]
doi:10.7287/peerj.preprints.2871v4
301 downloads
912 views

The dynamics of ecological communities have been described by neutral and niche theories that are now increasingly integrated into unified models. It is known that a critical transition exists between these two states, but the spatial aspect of this transition...

["Biodiversity","Computational Biology","Ecology","Mathematical Biology"]
doi:10.7287/peerj.preprints.1589v4
15 downloads
129 views

Locusts are famous for its excellent jumping performance. Jumping helps locusts avoid predators and initiate flight. In this paper, high-speed videos are recorded to analyze the jumping performance of Locusta migratoria Linnaeus from ground with different roughness....

["Animal Behavior","Mathematical Biology","Zoology"]
doi:10.7287/peerj.preprints.2877v1
58 downloads
104 views

Given the rapid population decline and recent petition for listing of the monarch butterfly (Danaus plexippus L.) under the Endangered Species Act, an accurate estimate of the Eastern, migratory population size is needed. Because of difficulty in counting individual...

["Conservation Biology","Ecology","Entomology","Mathematical Biology"]
doi:10.7287/peerj.preprints.2832v1
17 downloads
120 views

We studied the effect of linearization on the repeatability of the Tofts and reference region models (RRM) for Dynamic Contrast-Enhanced MRI (DCE MRI). We compared the repeatabilities of these two linearized models, the standard non-linear version, and semi-quantitative...

["Mathematical Biology","Radiology and Medical Imaging","Statistics"]
doi:10.7287/peerj.preprints.2824v1
48 downloads
220 views

This document is my attempt at distilling some of the information in two papers published by Anthony Nicholls (J. Comput. Aided Mol. Des. 2014, 28, 887; ibid 2016, 30, 103). Anthony also very kindly provided some new equations, not found in the papers, in response...

["Biophysics","Computational Biology","Mathematical Biology","Computational Science"]
doi:10.7287/peerj.preprints.2693v1
27 downloads
273 views

Marker gene sequencing of microbial communities has generated big datasets of microbial relative abundances varying across environmental conditions, sample sites and treatments. These data often come with putative phylogenies, providing unique opportunities to...

["Computational Biology","Ecology","Mathematical Biology","Microbiology","Statistics"]
doi:10.7287/peerj.preprints.2685v1
83 downloads
484 views

Knowledge on how functional responses (a measurement of feeding interaction strength) are affected by patch size and habitat complexity (represented by refuge availability) is crucial for understanding food-web stability and subsequently biodiversity. Due to their...

["Ecology","Mathematical Biology","Zoology"]
doi:10.7287/peerj.preprints.2190v2
57 downloads
284 views

Simulating development of fish stocks may be as complex as calculation of the development of the atmosphere, which is treated in meteorology as an initial value problem in physics. This approach was first proposed by Abbe and Bjerknes in the beginning of the 20...

["Aquaculture, Fisheries and Fish Science","Computational Biology","Mathematical Biology"]
doi:10.7287/peerj.preprints.2604v1
98 downloads
504 views

Wildlife collision data are ubiquitous, though challenging for making ecological inference due to typically irreducible uncertainty relating to the sampling process. We illustrate a new approach that is useful for generating inference from predator data arising...

["Conservation Biology","Ecology","Mathematical Biology","Statistics"]
doi:10.7287/peerj.preprints.2572v1
170 downloads
456 views

For this initial work, we shall focus on introducing a biological model for utilization [mainly] as a descriptive framework on which future analyses will be based. The model includes a definition of a biological system as a composite of properties that occupy defined...

["Bioengineering","Computational Biology","Mathematical Biology"]
doi:10.7287/peerj.preprints.1148v4
65 downloads
108 views

Here we shall apply the approach presented in the paper Dynamics of resource allocation in biological systems in considering resource allocation in cancer cell metabolism, specifically, aerobic glycolysis (Warburg effect). Aerobic glycolysis, the metabolic phenomenon...

["Biochemistry","Cell Biology","Mathematical Biology","Molecular Biology","Oncology"]
doi:10.7287/peerj.preprints.2533v1
102 downloads
205 views

‘Big Data’ and a surge in quantitative methodologies increasingly urge bioresearchers to train and improve their mathematical and computational skills. In response to this challenge the Biotechnology and Biological Sciences Research Council in the United Kingdom...

["Computational Biology","Mathematical Biology","Science and Medical Education","Statistics","Computational Science"]
doi:10.7287/peerj.preprints.2523v1
28 downloads
174 views

The Simulation Experiment Description Markup Language (SED-ML) is a standardized format for exchanging simulation studies independently of software tools. We present the SED-ML Web Tools, a software that supports SED-ML Level 1 Version 2, including complex modifications...

["Bioinformatics","Computational Biology","Mathematical Biology","Molecular Biology","Computational Science"]
doi:10.7287/peerj.preprints.2515v1
14 downloads
121 views

Here we present a single working model that attempts at reconciliation of biological systems. To do this we recognize and emphasize a universal theme of all biological systems: a need for resources. That is, we consider the dynamics of resource allocation as a...

["Biochemistry","Cell Biology","Mathematical Biology","Anatomy and Physiology","Metabolic Sciences"]
doi:10.7287/peerj.preprints.2503v1
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