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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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    Applying phylogenetic tree building in MEGA X to forensic applications for identifying unknown specimens
    This exercise is designed to guide a learner through the construction of phylogenetic trees as a means of addressing research questions in forensic science such as the identification of previously...

    Keywords: taxonomyBioinformatics and GenomicsDNA Barcodinginvertebrate phylogeneticsforensic entomology

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    Lesson V - Phylogenetics
    Genome Solver began as a way to teach undergraduate faculty some basic skills in bioinformatics; no coding or scripting is required. Lesson V is an introduction to Phylogenetics.

    Keywords: Bioinformatics EducationBioinformatics and Genomics

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    BLAST-HGT PROJECT
    Genome Solver modules were combined to make one project for students using tools within NCBI BLAST to explore phylogenetics and horizontal gene transfer from phage to Chlamydia.
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    Chapter 5: Hypothesis testing
    Biostatistics Using R: A Laboratory Manual was created with the goals of providing biological content to lab sessions by using authentic research data and introducing R programming language....

    Keywords: biostatisticsR programming language

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    Chapter 3: Visualizing data
    Biostatistics Using R: A Laboratory Manual was created with the goals of providing biological content to lab sessions by using authentic research data and introducing R programming language....

    Keywords: biostatisticsR programming language

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    Investigating Leaf Litter Decomposition and Invertebrate Communities in Streams
    Students utilize the provided dataset to engage in an open-inquiry project on the impacts of abiotic and biotic factors on stream macroinvertebrate communities and/or leaf litter decomposition.

    Keywords: Resources @ ESA - TIEEInvasive SpeciesfmnDIGspecies tolerance curvesdiversity indiceslitter decomposition ratesfreshwater ecologyopen-inquiry

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    Exploring Detritus-Based Food Webs in Streams
    This two-part field lesson for mid- to upper-level undergraduates connects allochthonous inputs to the invertebrate consumers that depend on them. After preparing students with background...

    Keywords: aquatic macroinvertebratesfunctional feeding groupallochthonousorganic matterleaf packRiver Field Studies Network

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    Hidden Markov Model
    Hidden Markov models are a set of mathematical tools that can be used to draw inferences about genomic and evolutionary processes.

    Keywords: hidden markov models

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    Intro to DNA Barcoding
    This is a classroom tested introductory lesson & activity to introduce DNA Barcoding and DNA Subway Blue Line. It is for novices and will fit into a 30-45 min lecture or lab class period.

    Keywords: phylogeneticsNIBLSEDNA BarcodingDNA sequenceBLASTmultiple sequence alignment

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    The Evolution of Color Vision in Monkeys: From Nucleotides to Ecology
    This case study examines the evolution color vision in Old World and New World monkeys from multiple biological perspectives.

    Keywords: phylogeneticsgenescase studybiologyResources @ NSF - NCCSTSColor visiondichromatictrichromaticnucleotidesproteinsopsinscell functioncone cellsphotoreceptorsspectral shiftgene duplicationmeiosissex-linkedfood gatheringmonkeysprimatesResources @ QUBES - Teaching & Referenceundergraduate biology education

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    Introduction to Assessing Biodiversity: Bivalves of the Rio Grande Area
    Learning to identify taxa is a key skill gained in many systematics classes. This module aims to introduce students to concepts and resources for identifying organisms and assessing species...

    Keywords: Biodiversityspecies distributionsdistance learninginvertebrate zoologyMuseum databases data literacyidentification

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    Type I Functional Response
    This module introduces the type I functional response in the context of understanding the relationship between an individual's rate of consumption and food density. It is intended for an...

    Keywords: ecologylinear equationsfood density

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    Leaf litter and soil invertebrates
    The diversity of invertebrates occupying the leaf litter and organic layer of soil can be quantified to examine abiotic and biotic questions. This lab can be used as a starting point for a...
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    DIG into Data for the Biology Classroom
    Session presentation on ecological data-centric teaching modules at the 2018 QUBES/BioQUEST Summer Workshop

    Keywords: teaching with data.DIGSummer Workshop 2018ecological datasets

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    Phylogeography Simulator
    This Excel workbook simulates the phylogeography of an asexually reproducing species.

    Keywords: Phylogeographymutation ratesAsexual reproductionspecies dispersal

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    javaFOODWEB
    More than 100 food web matrices (multiple predators/prey Excel worksheets) are included with the javaFOODWEB tool.

    Keywords: niche spacesCommunity Ecologyfood webspredator-prey interactionsMatricestrophic chain

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    GeoPhyl
    This Excel workbook allows students to explore evolution over space and time using published data on the invasive plant Tamarix (salt cedar).

    Keywords: Invasive SpeciesTamarixsalt cedarpermutation testrandom geographic distribution

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    Venom: To Kill or Cure?
    In this case study, students will explore concepts of evolution, protein structure and function, taxonomy, and methods of scientific inquiry in a real-world way.

    Keywords: EvolutionphylogeneticsidigbioAP Biologytaxonomynatural history collections3D modelsoVertVenomsnakesherps

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    Luria-Delbruck
    These two workbooks model the evolution of phage resistance in a bacterial population under two alternative hypotheses.

    Keywords: phageLuria-Delbruckresistance

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    EvolSeq
    An Excel worksheet that simulates the molecular evolution of DNA sequences.

    Keywords: molecular evolutionDNA

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