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Total of 196 results See all subject areas
biophysics

The past influences the present and future; for example, in computational chemistry, simplifying assumptions and approximations critical to problem-solving in the pre-computing era remains relevant today in allowing simulation of larger systems with reasonable...

["Biochemistry","Bioengineering","Biophysics","Computational Biology","Computational Science"]
doi:10.7287/peerj.preprints.365v1

The feasibility of disrupting a tumor’s vascular structure with various radiation types and radionuclides is investigated. Calculated absorbed dose profiles for photons and 4He ions suggest that low-energy beta-gamma and alpha emitting radionuclides can deposit...

["Biophysics","Biotechnology","Radiology and Medical Imaging"]
doi:10.7717/peerj.320

The binding of several rubromycin-based ligands to HIV1-reverse transcriptase was analyzed using molecular docking and molecular dynamics simulations. MM-PBSA analysis and examination of the trajectories allowed the identification of several promising compounds...

["Biochemistry","Biophysics","Computational Biology"]
doi:10.7287/peerj.preprints.348v1

Aetiologies of developmental dyslexia often assume a deficit in auditory processing may be causally entailed in the specific learning disorder. The purpose of this study is to compare a number of assumed auditory features that are supposed to evidence the account...

["Biophysics","Developmental Biology","Neuroscience","Cognitive Disorders","Psychiatry and Psychology"]
doi:10.7287/peerj.preprints.341v1

Why are the retinal color receptors cone-shaped? This is not a trivial question: the cone shape is evidently a universal feature of the color receptors while the achromatic rod receptors are always rod-shaped. What might be behind this dichotomy has not previously...

["Biophysics","Anatomy and Physiology","Ophthalmology"]
doi:10.7287/peerj.preprints.331v1

A multitude of studies have looked at the in vivo and in vitro behavior of the lac repressor binding to DNA and effector molecules in order to study transcriptional repression, however these studies are not always reconcilable. Here we use in vitro transcription...

["Biochemistry","Biophysics","Mathematical Biology","Microbiology","Molecular Biology"]
doi:10.7287/peerj.preprints.317v1

The addition of two electrons and two protons to the C17=C18 bond in protochlorophyllide is catalyzed by a light-dependent enzyme relying on NADPH as electron donor, and by a light-independent enzyme bearing a (Cys)3Asp-ligated [4Fe-4S] cluster which is reduced...

["Biochemistry","Biophysics","Computational Biology","Computational Science"]
doi:10.7287/peerj.preprints.302v1

We show for the first time the effects of heavy-hydrogen water (2H2O) and heavy-oxygen water (H218O) on the gliding speed of microtubules on kinesin-1 coated surfaces. Increased fractions of isotopic waters used in the motility solution decreased the gliding speed...

["Biophysics","Biotechnology"]
doi:10.7717/peerj.284

The mutant form GGBP/H152C of the D-glucose/D-galactose-binding protein with the solvatochromic dye BADAN linked to cysteine residue Cys 152 can be used as a potential base for a sensitive element of glucose biosensor system. We investigated the influence of various...

["Bioengineering","Biophysics","Molecular Biology"]
doi:10.7717/peerj.275

The eukaryotic polypyrimidine tract binding protein (PTB) serves primarily as a regulator of alternative splicing of messenger RNA, but is also co-opted to other roles such as RNA localisation and translation initiation from internal ribosome entry sites. The neuronal...

["Biochemistry","Biophysics","Molecular Biology","Virology"]
doi:10.7717/peerj.305

In many biological applications, we would like to be able to computationally predict mutational effects on affinity in protein–protein interactions. However, many commonly used methods to predict these effects perform poorly in important test cases. In particular,...

["Biochemistry","Biophysics","Computational Biology","Virology","Infectious Diseases"]
doi:10.7717/peerj.266

Background: The thickness and composition of the surface liquid lining the human lungs are maintained by a balance between epithelial secretion and absorption of ions and water. An understanding of epithelial transport pathways and the factors that regulate them...

["Bioengineering","Biophysics","Cell Biology","Molecular Biology","Respiratory Medicine"]
doi:10.7287/peerj.preprints.256v1

In many biological applications, we would like to be able to computationally predict mutational effects on affinity in protein-­protein interactions. However, many commonly used methods to predict these effects perform poorly in important test cases. In particular,...

["Biochemistry","Biophysics","Computational Biology","Virology","Infectious Diseases"]
doi:10.7287/peerj.preprints.138v3

The eukaryotic polypyrimidine tract binding protein (PTB) serves primarily as a regulator of alternative splicing of messenger RNA, but is also co-opted to other roles such as RNA localisation and translation initiation from internal ribosome entry sites. The neuronal...

["Biochemistry","Biophysics","Molecular Biology","Virology"]
doi:10.7287/peerj.preprints.211v1

Water immersion skin wrinkling has long been used as a test for sympathetic nerve function. However, the cause of underlying mechanism remained elusive. In this article, we theoretically investigate a possible cause of the phenomenon by taking various properties...

["Biophysics","Anatomy and Physiology","Dermatology","Neurology"]
doi:10.7287/peerj.preprints.57v4

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