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The QUBES platform hosts hundreds of teaching materials, reference materials, and cloud-based software free to use and adapt using open Creative Commons licenses.

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    Using Raw Sequence Data to Analyze Tumor Suppressor Mutations
    Learning to identify DNA sequence variants from raw sequencing data (electropherograms) is a basic molecular biology skill with applications to basic research and clinical practice. Yet learning to...

    Keywords: bioinformaticsmutationDNAgenomic visualizationparts of a geneclinical consequencesraw data

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    Does Organelle Shape Matter?: Exploring Patterns in Cell Shape and Structure with High-Throughput (HT) Imaging
    Organelle structure has been studied and visualized for decades; however, publicly available databases that use improved high-throughput microscopy of gene-edited cell lines have recently...

    Keywords: modelingcase studymicroscopystructureOrganellesHigh-throughput (HT)Endoplasmic Reticulum (ER)Fluorescent microscopyHuman Cell Biology

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    Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses
    Introductory bioinformatics exercises often walk students through the use of computational tools, but often provide little understanding of what a computational tool does "under the...

    Keywords: BLASTmultiple sequence alignmentsequence similarityphylogramZika virusAlgorithmScoring Matrix

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    A Fun Introductory Command Line Lesson: Next Generation Sequencing Quality Analysis with Emoji!
    Radical innovations in DNA sequencing technology over the past decade have created an increased need for computational bioinformatics analyses in the 21st century STEM workforce. Recent...

    Keywords: bioinformaticsgenomicscodingJupyter notebookcommand lineCyVersescriptingnext generation sequencing analysis

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    Using Constructed Response Questions on High-Stakes Assessments in Large Classes With Limited Support
    Large lecture courses often rely heavily, and sometimes exclusively, on Multiple Choice (MC) exams to assess student learning. Constructed Response (CR) questions, in which students generate their...

    Keywords: assessmenttestexamLarge classconstructed responseshort answerscoring

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    2014-William_Trench-Elementary_Differential_Equations-Books_and_Monographs
    This is the most widely cited and referenced free online text for differential equations and is very complete. These two books are exactly what they say they are.

    Keywords: differential equationstextbook

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    Healing the scars: A tropical rainforest carbon cycling module implemented in a Forest Ecology course
    This publication describes my implementation of this module on tropical rainforest carbon cycling in an undergraduate forest ecology course for majors in the Department of Silviculture and Forest...

    Keywords: carbon cyclingnutrient cyclingenergy flowecosystem productivity

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    Modified Grassy Narrows and Muskrat Falls Dam: Hypothesis Testing and t-Tests
    Methylmercury contamination within fish populations is an important toxin that affect human, animal, and environmental health, serving as a carcinogen (cancer-causing agent) and endocrine-disruptor...

    Keywords: statisticsmathematicsbiostatisticsecologybiologygraphingp-valuest-testshypothesis testingin-class activityZoologymercury biogeochemistrybiostatistics - generalfish populationqbccEndocrine DisruptorsBiogeochemical cyclesInterpret graphsSolving Equations and InequalitiesConcepts in StatisticsElementary Hypothesis TestingMethylmercurydamsBioaccumulationtraditional dietsmercurymercury poisoningnative peopleindigenous populationCanadahydroelectricexplaining statisticsusing statisticsMake probability calculationsbiomagnification

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    Ripped from the Headlines! Creating Case Studies from Primary Literature.
    Poster on using case studies developed from primary literature presented at the 2018 QUBES/BioQUEST Summer Workshop

    Keywords: case studyprimary literatureSummer Workshop 2018

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    Investigating Gene Expression and Cell Specialization in Axolotl Embryos
    The process of cell specialization is critical to the formation and function of tissues in animals and plants. Although gene expression, including the regulation of transcription, is taught in most...

    Keywords: developmenttranscriptiongene expressionmodel organismembryo

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    Application of a Bacterial Experimental Evolution System to Visualize and Teach Evolution in Action: A Course-Based Undergraduate Research Experience
    Concepts of evolution are typically taught through examples of extremely long timescales, which do not always resonate broadly. Here, we describe a course-based undergraduate research experience...

    Keywords: EvolutionmutationcompetitionNatural Selectionregulationstructure and functionreproductive fitnessgenotype to phenotypehomologs

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    Exploring the Complexities of Photosynthesis Through a Comic Strip
    Photosynthesis is a conceptually challenging topic. The small scale at which photosynthesis takes place makes it difficult for students to visualize what is occurring, and students are often...

    Keywords: photosynthesislight-dependent reactionsCalvin cyclechloroplast

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    Where Does Elsie's Hair Color Come From? A "De-Simplified" Pedigree Lesson
    Pedigree analysis is part of most Genetics curricula, but the examples traditionally used in genetics courses present phenotypes as if they were entirely and inexorably defined by genotype. This...

    Keywords: pedigreeMultifactorialphenotypic variationpenetranceexpressivityquantitative variation

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    SCIENCE/Fiction: Modular Template for Class Design
    We present a modular scaffold for designing an introductory seminar using speculative fiction and science papers to welcome university undergraduates to the biology major. A list of twelve possible...

    Keywords: geneticscell biologyneurosciencesystems biologyScience Fiction

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    2017-Andrew_Lewis-Introduction_to_Differential_Equations_for_Smart_Kids
    The author addresses the question, "If I do not teach all of the usual techniques and tricks for solving differential equations, what do I replace it with?" in a number of wonderful ways.

    Keywords: differential equationsmodelingtextbook

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    Wind and Ocean Ecosystems (Project EDDIE)- adapted to provide greater autonomy for students in an upper level class
    This module adaption focuses on the interplay between winds, ocean upwelling, and marine productivity. Students are able to select and download their own data and compare results among different...
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    My Fish Tank: An Active Learning Activity for Bacterial Nitrogen Metabolism
    This active learning activity introduces students to the second part of the nitrogen cycle, nitrification. In terrestrial and aquatic environments, bacteria from the Nitrosomonas and Nitrobacter...

    Keywords: nitrogen cyclenitrificationnitrifying bacteria

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    ENCOUR - Ethics Network for Course-based Opportunities in Undergraduate Research: Phase II (RCN-UBE Introduction)
    The Ethics Network for Course-based Opportunities in Undergraduate Research (ENCOUR) seeks to explore effective ways to integrate responsible & ethical conduct of research (RECR) education into...

    Keywords: RCN-UBE Introduction

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    How to Design a Classroom Activity that Integrates 3D Print Models with Active Learning
    Student exploration of relevant physical models can deepen knowledge of course material. In this guide we describe a method by which instructors can integrate 3D printing technology with an...

    Keywords: active learning3D print modelsclassroom jigsaw

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    Problem-Based Learning for Physiology: Synthesizing the Cardiovascular System, Respiration, Macronutrient Metabolism, and Renal Function
    Problem Based Learning (PBL) is a valuable tool for helping students overcome reliance on memorization by scaffolding opportunities for them to practice the competency of...

    Keywords: MetabolismObesityblood pressurecardiac functioncardiovascularmetabolic syndromerenalRespirationrespiratory system

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