This short paper presents an educational approach to teaching three popular methods for encoding DNA sequences: one-hot encoding, binary encoding, and integer encoding. Aimed at bioinformatics and computational biology students, our learning intervention focuses on developing practical skills in implementing these essential techniques for…

Enzymes are nature's catalysts, mediating chemical processes in living systems. The study of enzyme function and mechanism includes defining the maximum catalytic rate and affinity for substrate/s (among other factors), referred to as enzyme kinetics. Enzyme kinetics is a staple of biochemistry curricula and other disciplines, from molecular and…

This study was grounded in the spatial computational thinking model developed by the "3D Weather" project funded by the NSF STEM+C program. The model reflects a discipline-based perspective towards computational thinking and captures the spatial nature of computational thinking in meteorology and the reliance of computational thinking on…

There have been a few methods described in this journal and elsewhere for measuring the wavelength of the standing electromagnetic waves in a microwave oven. Typically, these involve melting chocolate, cheese, or some other substance on a plate that is prevented from rotating. In this article I describe a more dynamic and colorful technique that…

Sky appears to our students as a vast volume surrounding the Earth. The most striking astronomical events that they can witness in the sky are lunar phases and eclipses. However, eclipses do not occur as often as full and new phases of the Moon. This difference is due to the fact that the orbital planes of the Moon and the Earth do not overlap.…

This paper develops the ideas of "The Pedagogical Power of Context: Iterative Calculus Methods and the Epidemiology of Eyam" (French "et al." 2018 "J. Phys. Educ."), where we considered the application of the Euler method to solve epidemiological problems. Our purpose was to convey some examples of school level work…

Gravitational lensing is an interesting phenomenon in astronomy and is most typically given rise to by galaxies. The majority of the matter in a galaxy is thought to be dark matter, and the galactic gravitational lensing effect is mainly caused by dark matter halos. In gravitational lensing-related demonstrations in physics education, the feet of…

Computational thinking (CT) is one of the systematic tools in problem solving and widely accepted as an important skill in the 21st century. This study aimed to identify the effectiveness of the Chemistry Computational Thinking (CT-CHEM) Module on achievement in chemistry. This study also employed a quasi-experimental design with the participation…

The "Yet Another extended Hu¨ckel Molecular Orbital Package" (YAeHMOP) has been merged with the Avogadro open-source molecular editor and visualizer. It is now possible to perform YAeHMOP calculations directly from the Avogadro graphical user interface for materials that are periodic in one, two, or three dimensions, and to visualize…

When a shock wave interacts with a contact discontinuity, there may appear a reflected rarefaction wave, a deflected contact discontinuity and a refracted supersonic shock. The numerical simulation of shock wave refraction at a plane contact discontinuity separating gases with different densities is performed. Euler equations describing inviscid…

Atomic orbitals are a theme throughout the undergraduate chemistry curriculum, and visualizing them has been a theme in this journal. Contour plots as isosurfaces or contour lines in a plane are the most familiar representations of the hydrogen wave functions. In these representations, a surface of a fixed value of the wave function ? is plotted…

Because electric fields are both invisible and three dimensional, they can be quite difficult to introduce to students. Simple diagrams are unable to convey the complexity or depth of the field, and computer simulations in isolation do not provide a familiar spatial context for students to understand what they see. Through "immersing"…

The greatest difficulty that is encountered by students in thermodynamics classes is to find relationships between variables and to solve a total differential equation that relates one thermodynamic state variable to two mutually independent state variables. Rules of differentiation, including the total differential and the cyclic rule, are…

A Chemistry Concept Reasoning Test was created and validated providing an easy-to-use tool for measuring conceptual understanding and critical scientific thinking of general chemistry models and theories. The test is designed to measure concept understanding comparable to that found in free-response questions requiring explanations over…

We present an experiment, well adapted for students of introductory optics courses, for the visualization of the impact of spherical aberration in the point spread function of imaging systems. The demonstrations are based on the analogy between the point-spread function of spherically aberrated systems, and the defocused patterns of 1D slit-like…