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Deep learning has become a powerful tool in computational biology, revolutionising the analysis and interpretation of biological data over time. In our article review, we delve into various aspects of deep learning in computational biology.…
We discuss the development, implementation, and assessment of a course for science undergraduates designed to help them develop an awareness and a deeper appreciation of the intellectual demands of physics teaching. The course focused on…
Recruiting and retaining highly qualified physics and physical science teachers is critical for maintaining America's global competitiveness. Unfortunately, only one third of the high school teachers in physics have a degree in physics and…
Hexoses are simple sugars that play a key role in many cellular pathways, and in the regulation of development and disease mechanisms. Current protein-sugar computational models are based, at least partially, on prior biochemical findings…
The epistemology of science students, i.e., their beliefs about the nature of the knowledge they are learning, about what they have to do to learn it, and about how they will use that knowledge, often plays a powerful role in what they…
Proteins are macromolecules that perform essential functions in all living organisms. Designing novel proteins with specific structures and desired functions has been a long-standing challenge in the field of bioengineering. Existing…
Context: Experiment replications play a central role in the scientific method. Although software engineering experimentation has matured a great deal, the number of experiment replications is still relatively small. Software engineering…
We present a simple, accessible, yet rigorous outreach/educational program focused on quantum information science and technology for high-school and early undergraduate students. This program allows students to perform meaningful hands-on…
Statistical models have been successful in accurately estimating the biochemical contents of vegetation from the reflectance spectra. However, their performance deteriorates when there is a scarcity of sizable amount of ground truth data…
Characterizing structural and dynamic properties of proteins and large macromolecular assemblies is crucial to understand the molecular mechanisms underlying biological functions. In the field of Structural Biology, no single method…
The capability of accurate prediction of protein functions and properties is essential in the biotechnology industry, e.g. drug development and artificial protein synthesis, etc. The main challenges of protein function prediction are the…
We describe a project-based physics lab, which we proposed to third-year university students. Theses labs are based on new open-source low-cost equipment (Arduino microcontrollers and compatible sensors). Students are given complete…
Quantum mechanics is a field often considered very mathematical, abstract, and unintuitive. One way some instructors are hoping to help familiarize their students with these complex topics is to have the students see quantum effects in…
Without any major changes, a pilot version of a physical science lab course was able to continue when the COVID-19 crisis necessitated the abrupt suspension of on-campus education. The 'Maker Lab' course, in which students conceive and set…
Unsupervised machine learning is widely used to mine large, unlabeled datasets to make data-driven discoveries in critical domains such as climate science, biomedicine, astronomy, chemistry, and more. However, despite its widespread…
With the interactivity and multiple representation features, computer simulations lend itself to the guided inquiry learning. However, these simulations are usually designed for post-elementary students. Thus, the aim of this study is to…
While many good textbooks are available on Protein Structure, Molecular Simulations, Thermodynamics and Bioinformatics methods in general, there is no good introductory level book for the field of Structural Bioinformatics. This book aims…
Reform documents advocate for innovative pedagogical strategies to enhance student learning. A key innovation is the integration of science and engineering practices through Engineering Design (ED)-based physics laboratory tasks, where…
We discuss a case study of the influence of epistemology on learning for a student in an introductory college physics course. An analysis of videotaped class work, written work, and interviews indicates that many of the student's…
Accurately modeling and designing protein complex structures is a central problem in computational structural biology, with broad implications for understanding cellular function and developing therapeutics. This thesis investigates two…