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    Foundations of Bioinformatics (BGGN-213)
    This first short screen-cast introduces “Foundations of Bioinformatics” (BGGN-213) course at UCSD and covers some pre-course logistics.

    Keywords: bioinformaticsgenomicsyoutubescreen cast

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    ProteinPhysiochemistry
    How to determine physiochemical features of proteins using ExPasy Protpram, SOSUI server, and PSortB programs.

    Keywords: videosbioinformaticsproteinsgenomicsyoutubeprotein physiochemistryExPasy ProtpramSOSUI serverPSortB

    1091

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    309

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    LEAGSEA
    How to perform Leading Edge Analysis in Gene Set Enrichment Analysis by Broad Institute

    Keywords: videosbioinformaticsgenomicsyoutubeLEAGSEAgene set enrichmentLeading Edge Analysis

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    Using Phyre2
    How to use Phrye2 and 3DLigandSite to computationally predict protein and active site structure and binding partners (substrates/cofactors/coenzymes).

    Keywords: videosbioinformaticsproteinsgenomicsyoutubephyre23DLigandSite

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    Simple Heat Maps with Morpheus
    Learn how to load an Excel file of raw data into Morpheus and change between relative and global scales.

    Keywords: Excelbioinformaticsgenomicsyoutubemorpheusheat maps

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    How to create "funny symbols" (aka math / statistical notation) in Microsoft Word / Office
    YouTube video on using statistical notation in Microsoft Word.

    Keywords: videosonline learninggenomicsyoutubestatistics symbols

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    Frayer model growth mindset
    A Frayer model worksheet for the concept of growth mindset.

    Keywords: growth mindsetFrayer model

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    2018-Weber_Theers_Surmann_Ligges_Weihs-Sensitivity Analysis_of_Ordinary_Differential_Equation_Models
    This report will focus on the sensitivity analysis of ordinary differential equation (ODE) models since they can be used to model so-called Low Frequency Oscillations (LFOs).

    Keywords: sensitivityregressionparameter estimationsystemlow frequency oscillationsoscillations

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    A Close-Up Look at PCR
    The Polymerase Chain Reaction (PCR) is a fundamental laboratory technique that allows for the amplification of many copies of a desired DNA target sequence. Despite its prevalence, undergraduate...

    Keywords: PCRDNA replication

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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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    2012-Arvind_Kumar_Misra-A simple mathematical model for the spread of two political parties
    In this paper, a non-linear mathematical model for the spread of two political parties has been proposed and analyzed by using epidemiological approach.

    Keywords: epidemiccompartmentpolitical parties

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    2006-TK_Kar-Controllability and optimal harvesting of a prey–predator model incorporating a prey refuge
    This paper deals with a prey–predator model incorporating a prey refuge and harvesting of the predator species.

    Keywords: survivalpredator-preyharvestrefugePontryagin’s maximal principlehidingoptimal harvest

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    1971-Carl_Metzler-Usefulness Of Two Compartment Open Model In Pharmacokinetics
    Compartment models are widely used in pharmaceutical research to quantitate the kinetics of absorption, distribution, metabolism and excretion of a drug. In this article two applications of the two...

    Keywords: LSDcompartmentpharmacokinetics

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    1-118-SolowEconomicGrowth-ModelingScenario
    Students construct and analyze the celebrated Solow-Swan model of economic growth theory. The project is divided into three sequential parts to teach students to understand, develop, and analyze a...

    Keywords: optimizationeconomicssteady stategrowthSolow-Swan modelcapitalproductionlaborGolden Rule of Economic Growth

    220

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    A 360˚ View of COVID-19
    In March 2020, institutions underwent a massive transition to distance learning as a result of the COVID-19 pandemic. With so little time to devise new materials to maximize learning in the new...

    Keywords: geneticsImmunologyBiochemistrybioinformaticsmolecular evolutionpublic healthvirusCOVID19

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    Agent-Based Modeling Course Materials
    Materials created for an upper level ABM course. Prerequisite: Students have taken either (a) another modeling course, or (b) the introductory computer science sequence.

    Keywords: agent-based modelingindividual-based modelingcourse materials

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    2007-Exben_Friis-Jensen-Modeling and Simulation of Glucose-Insulin Metabolism
    In this thesis one of the models of diabetes, Bergman’s minimal model is described trough derivation and simulations.

    Keywords: Metabolisminsulin resistanceglucosePID controllerintolerance

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    BEDE - Biological and Environmental Data Education Network: Preparing Instructors to Integrate Data Science into Undergraduate Biology and Environmental Science Curricula (RCN-UBE Introduction)
    The Biological and Environmental Data Education Network (BEDE Network) develops and shares teacher-training workshops, curricular designs, teaching modules, and best practices to help integrate...

    Keywords: computational toolsdata scienceRCN-UBE Introduction

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    Introduction to Mathematical Modeling in Biotechnology, Cell Biology, and Physiology
    The course is a mathematical and computational exploration of five diverse areas of biology: human locomotion, gene sequence analysis, signal transduction pathways involved in cancer,...

    Keywords: mathematical modelingcoursehuman locomotionneuroanatomyneurophysiologysignal transductiongene sequence analysis

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    Understanding the Quantitative and Computational Skills of Incoming Biology Students
    Presentation given as part of a Minisymposium at BEER 2015.

    Keywords: assessmentBioSQuaRE

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