Open science, open data, open source projects for undergraduate research experiences

17 Jun 2015 | Teaching & Reference Material | Contributor(s): Kam Dahlquist

This resource has been updated - find the current version here: https://qubeshub.org/publications/314Description:In this workshop, I will demonstrate a suite of open source tools that students use in my courses to conduct original research in my courses.  In a team-taught, cross-listed...

Joel E. Greengiant Learns About Peas: From Nucleotides to Selection

17 Jun 2015 | Teaching & Reference Material | Contributor(s): Merle Heidemann, Peter J.T. White, Jim Smith

This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/845This case study follows purveyors of peas, Joel E. and Jolene Greengiant, as they learn about the origin, biochemistry, genetics and eventual artificial selection of sweet...

Joel E. Greengiant Learns About Peas: From Nucleotides to Selection

17 Jun 2015 | Teaching & Reference Material | Contributor(s): Merle Heidemann, Peter J.T. White, Jim Smith

This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/845This case study follows purveyors of peas, Joel E. and Jolene Greengiant, as they learn about the origin, biochemistry, genetics and eventual artificial selection of sweet...

The Evolution of Color Vision in Monkeys: From Nucleotides to Ecology

16 Jun 2015 | Teaching & Reference Material | Contributor(s): Merle Heidemann, Peter J.T. White, Jim Smith

This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/843This case study examines the evolution color vision in Old World and New World monkeys from multiple biological perspectives. This integrative approach employs both...

Robot vs. Disease: Using CellProfiler to model biomedical research in your classroom

15 Jun 2015 | Teaching & Reference Material | Contributor(s): Mark Bray

This resource has been updated - find the current version here: https://qubeshub.org/publications/315Date & Time:Saturday, June 13 @ 2PM & Sunday June 14, @2PMDescription: In this session, I will introduce the open-source and freely-available software package CellProfiler,...

Quantitative reasoning: Interdisciplinary STEM 21st century reasoning modality

14 Jun 2015 | Teaching & Reference Material | Contributor(s): Robert Lee Mayes

This resource has been updated - find the current version here: https://qubeshub.org/publications/316Date & Time:Wednesday, June 17 @ 9AMDescription:The Next Generation Science Standards (NGSS 2013) and the Common Core State Standards for Mathematics (NGA 2010) call for improving...

Undergraduate Research Experiences in Computational Science at a Community College

13 Jun 2015 | Teaching & Reference Material | Contributor(s): Tony Sena

This resource has been updated - find the current version here: https://qubeshub.org/publications/320We will present our experiences doing undergraduate research in the area of parallel computing and distributed systems on a multidisciplinary environment with STEM students. We show that...

Visualization: Quantitative reasoning via image analysis, networks, topology, generative models, and 3D rendering

10 Jun 2015 | Teaching & Reference Material | Contributor(s): Sam S Donovan, John R Jungck

This resource has been updated - find the current version here: https://qubeshub.org/publications/321Additional resources for:"Visualization: Quantitative reasoning via image analysis, networks, topology, generative models, and 3D rendering" by John R. JungckDate and Time:...

Avida-ED presentation: Context Dependent Fitness

07 Jun 2015 | Teaching & Reference Material | Contributor(s): Maren L Friesen, Andrew M Jarosz

Avida-ED exercise showing adaptation to contrasting resource environments illustrating that the fitness of different genotypes depends on the environment.

Avida-ED User Manual

07 Jun 2015 | Teaching & Reference Material | Contributor(s): Diane Blackwood

Basic User manual to use Avida-ED

Agent-based and Individual-based Modeling: A Practical Introduction

03 Jun 2015 | Teaching & Reference Material | Contributor(s): Steven F Railsback, Volker Grimm

From the authors website:  "We designed this book to fill the need for an introductory text on agent-based modeling for scientists, for use both in university courses (graduate or upper level undergraduate) and by people teaching themselves. The book is not specific to any particular...

HHMI-AAMC Scientific Foundations for Future Physicians report

03 Jun 2015 | Teaching & Reference Material

The AAMC and HHMI convened a group of scientists, physicians, and science educators from small colleges, large universities, and medical schools around the United States to determine the most important scientific competencies required of students graduating from college prior to matriculating...

A Quick Guide to Teaching R Programming to Computational Biology Students

03 Jun 2015 | Teaching & Reference Material | Contributor(s): Stephen Eglen

This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/838An introduction from an experienced educator in teaching R to computational biology graduate students. Contains information that is relevant for the undergraduate classroom...

Exploring generic scale-free networks

02 Jun 2015 | Teaching & Reference Material | Contributor(s): Winfried Just, Hannah Lea Callender, Drew LaMar

This module is a companion module to Module [[Resource(384)]]. Here we study in more detail networks that are generic for a given network size and a given exponent of a power-law degree distribution. We explore predicted structural properties of such networks both mathematically and with...

Clustering coefficients

02 Jun 2015 | Teaching & Reference Material | Contributor(s): Winfried Just, Hannah Lea Callender, Drew LaMar

In this module we introduce several definitions of so-called clustering coefficients. A motivating example shows how these characteristics of the contact network may influence the spread of an infectious disease. In later sections we explore, both with the help of IONTW and theoretically,...

Small-world models

02 Jun 2015 | Teaching & Reference Material | Contributor(s): Winfried Just, Hannah Lea Callender

Small-world networks are classes of networks that have both the small-world property and exhibit strong clustering. Two constructions of such networks are implemented in IONTW. Here we study, both theoretically and with simulation experiments, the structure of these networks and how it influences...

BIO2010: Transforming Undergraduate Education for Future Research Biologists

25 May 2015 | Teaching & Reference Material | Contributor(s): Committee on Undergraduate Biology Education to Prepare Research Scientists for the 21st Century, Board on Life Sciences, Division on Earth and Life Studies, National Research Council

Biological sciences have been revolutionized, not only in the way research is conducted -- with the introduction of techniques such as recombinant DNA and digital technology -- but also in how research findings are communicated among professionals and to the public. Yet, the undergraduate...

Vision and Change in Undergraduate Biology Education: A Call to Action

25 May 2015 | Teaching & Reference Material

This is the final report of a national conference organized by the American Association for the Advancement of Science with support from the National Science Foundation in an effort to show how the undergraduate biology education system needs to be improved: "Given the radical changes in the...

BioRadiant

19 May 2015 | Software (On-site) | Contributor(s): Drew LaMar

Interactive statistics package using R and Shiny.

Statistical Power for One-Sample t-Test

18 May 2015 | Software (On-site) | Contributor(s): Drew LaMar

Interactive visualization of statistical power for a one-sample t-test.