QUBES - Resources

Discrete Modeling and Structures (Course Materials)

These are the materials for DCS course offered at Bates College. This is a sampler of structures and ways they are used to model biological and social phenomena.

Keywords: labsagent-based modelingoctavematlabDiscrete Difference Equationsmatrix modelscoursezombiesbiomath courseeconomicsdemonstrationin-class activitylab protocolproblem sethamlet

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Introduction to Primate Data Exploration and Linear Modeling with R

Introduction to Primate Data Exploration and Linear Modeling with R was created with the goal of providing training to undergraduate biology research students on data management and statistical...

Keywords: R programming languageprimatespopulation ecology

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Build Multiomic and Visualization Skills in Bioscience Lecture

This resource promotes inclusive learning by using all free platforms to extend the central dogma to an applied experience. Genomics is focused on with literature reviews that are performed to...

Keywords: geneticsBiochemistryBiology and Biochemistry EduationProtein StructureBioinformatics and GenomicsFunctional GenomicstranscriptomicsproteomicsRNAseqClinical genomicsprotein structure modelingInclusive teaching3D protein structure /function analysisinclusive classrooms3D protein structuresinclusivegene

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Have fish assemblages recovered from the legacy of acid rain?

This module provides a framework for upper-level ecology students to learn about limiting factors for stream fish diversity, using data from Shenandoah National Park and gaining skills in...

Keywords: Problem based learningdiversitycooperative learninglimiting factorsaquatic ecosystemspyramid examlab reports

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Quantifying Bacterial Growth in the Guts and Hemolymph of Fruit Flies: Mathematical Modeling and Data Interpolation/Extrapolation

In this activity, students will analyze raw data obtained from an experiment that explores the effect of overexpressing the Ssk protein in order to strengthen the intestinal barrier and prevent...

Keywords: graphingexponential growthlinear modelsqbccinterpolationConcepts in Statistics and Precalculus Understanding exponential rates and linear slopesExtrapolation

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Responses to Climate Change in California Chipmunks: Move, Adapt, or Die

A series of three modules using data from natural history museum collections to examine responses to climate change in multiple chipmunk species. Elevation and morphological data, beginner skills...

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Geoscience Methods and Resources for K-5 Pre-Education Majors

: Exploring Geoscience Methods was an excellent capstone experience for Elementary Education Majors. The class I used this module with was 24 students of various backgrounds and academic...

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Exploring how climate will impact plant-insect distributions and interactions using open data and informatics

This teaching module provides an entry point for students to learn about data science, open data repositories (e.g., citizen science data), and species distribution modeling to study the effects of...

Keywords: modelingcitizen sciencehypothesis testingdata scienceclimate changeR programming languageBiodiversityplant animal interactionsinquiry-based learningspecies distributionseco-informatics

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BEDE Network Data Science Skills Curriculum Map

The Biological and Environmental Data Education (BEDE) Network has produced this data science skills curriculum map as a flexible tool to help instructors highlight data science skills that they...

Keywords: quantitative skillsscientific literacyCurriculum developmentdata science skills trainingdata literacy skills

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Materials for Teaching the SIR Epidemic Model

This web page contains materials created by faculty of the University of Nebraska-Lincoln Department of Mathematics to teach basic fundamentals of mathematical epidemiology.

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COVID-19: On the way to a vaccine

This multi-part case study introduces the reader to the SARS-CoV-2 virus origins, the molecular basis of the infection, the development and severity of symptoms, and treatment.

Keywords: BLASTprotein structure modelingmolecular visualization and analysisCOVID19PDB

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Understanding COVID-19 Biology to Design a Vaccine

This multi-part case study introduces the reader to the SARS-CoV-2 virus, replication, and treatment. Additional worksheets introduce students to bioinformatics tools of 3-D protein visualization...

Keywords: BLASTprotein structure modelingmolecular visualization and analysisCOVID19PDB

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A Growing Concern: Sustaining Soil Resources through Local Decision Making

This module addresses this need by providing students the opportunity to examine the differences between intensively managed agricultural landscapes (e.g. grazelands, conventional tillage) and...

Keywords: sustainabilityenvironmental sciencegeologysoil scienceResources @ InTeGrate

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Environmental Drivers of Ecosystem Carbon Fluxes from Minutes to Years

Students build on fundamental concepts of ecosystem production and carbon cycling, combining this knowledge with open long-term data from ecological and meteorological networks to uncover the...

Keywords: climate changecarbonPlant EcologyBiogeochemistryResource Typecarbon cyclingproductivitynet ecosystem productiongross primary productionecosystem respirationcarbon fluxes

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Navigating Bacterial Changes in Aging Organisms: Graphs, Patterns, and Models

Aging is an incredibly important area of research, and recent biological advances implicate the intestines in aging pathologies. Given that the gut harbors an immense amount of an organism’s...

Keywords: statisticsgraphingmathematics for life sciencesmathexponential growthPrecalculus

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Discrete Modeling and Structures (Course Materials)

Introduction to Primate Data Exploration and Linear Modeling with R

Build Multiomic and Visualization Skills in Bioscience Lecture

Have fish assemblages recovered from the legacy of acid rain?

Quantifying Bacterial Growth in the Guts and Hemolymph of Fruit Flies: Mathematical Modeling and Data Interpolation/Extrapolation

Responses to Climate Change in California Chipmunks: Move, Adapt, or Die

Geoscience Methods and Resources for K-5 Pre-Education Majors

Exploring how climate will impact plant-insect distributions and interactions using open data and informatics

BEDE Network Data Science Skills Curriculum Map

Materials for Teaching the SIR Epidemic Model

COVID-19: On the way to a vaccine

Understanding COVID-19 Biology to Design a Vaccine

A Growing Concern: Sustaining Soil Resources through Local Decision Making

Environmental Drivers of Ecosystem Carbon Fluxes from Minutes to Years

Navigating Bacterial Changes in Aging Organisms: Graphs, Patterns, and Models

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