A brief introduction to the use of UCSC Genome Browser for exploring SNP loci in the human genome ... designed as a prequel to an in-class activity.

A rough, quick and dirty introduction to QUBES hub 

Naked Egg presented to 5th grade science classes at Jesse Wharton Elementary School (JWES) in Greensboro, NC by Tonya Gerald-Goins.

"The students learned a lot and it was directly aligned with our Common Core standards for 5th grade Science." Mrs. Yorel Lofters, 5th Grade Teacher, JWES

From their web site:

"CamStudio is able to record all screen and audio activity on your computer and create industry-standard AVI video files and using its built-in SWF Producer can turn those AVIs into lean, mean, bandwidth-friendly Streaming Flash videos (SWFs)

Here are just a few ways you can use this software:

• You can use it to create demonstration videos for any software program
• Or how about creating a set of videos answering your most frequently asked questions?
• You can create video tutorials for school or college class
• You can use it to record a recurring problem with your computer so you can show technical support people
• You can use it to create video-based information products you can sell
• You can even use it to record new tricks and techniques you discover on your favourite software program, before you forget them"

9-12 Grade

June 2017

August 2017

For those who are interested. Here are the slides from the Beanbag Biology workshop from Monday. Please contact Holly Gaff for any questions: hgaff@odu.edu or holly.gaff@gmail.com.

Mentioned in the models and modeling workshop

Visit our website to download the BIOMAAP materials presented at our workshop.  You can also sign up for our monthly email newsletter to find out about upcoming workshops, faculty mentoring networks, and new BIOMAAP materials.

These slides have an overview of what was discussed in the Invitation to Modeling Workshop, with links to resources embedded in presentation and listed below.

• Aikens, M., Dahlquist, K.D., Dauer, J.T., Donovan, S., Eaton, C.D., Highlander, H.C., Jenkins, K.P., Jungck, J.R., LaMar, M.D., Ledder, G., Mayes, R.L., Schugart, R.C. (2017) An Invitation to Modeling:  Building a Community with Shared Explicit Practices, to be submitted to CBE: Life Sciences Education in mid-August, draft available: https://docs.google.com/document/d/168826jQsv5zoNVXKJLaQeWC-VvXyKSB2cF28R1opZmY/edit?usp=sharing
  • Please give us feedback by commenting on this draft!

• Eaton, C.D., Callendar, H.L., Dahlquist, K.D., LaMar, M.D., Ledder, G., Schugart, R.C.  (2016)  A “Rule of Five” Framework for Models and Modeling to Unify Mathematicians and Biologists and Improve Student Learning, submitted on 20 June 2016 to the journal PRIMUS:  Problems, Resources, and Issues in Mathematics Undergraduate Studies https://arxiv.org/abs/1607.02165v2

• Kam and Drew’s Lactase Persistence Activity is based on this article:

  • Morales, E., Azocar, L., Maul, X., Perez, C., Chianale, J., & Miquel, J. F. (2011). The European lactase persistence genotype determines the lactase persistence state and correlates with gastrointestinal symptoms in the Hispanic and Amerindian Chilean population: a case–control and population-based study. BMJ open, 1(1), e000125. http://dx.doi.org/10.1136/bmjopen-2011-000125

• Carrie’s HWE model lesson plan: https://docs.google.com/documen/d/1Re58_Gs1SMEEPhXUwcvgblpHG2mC6LT0vzhigjtPBoA/edit

  • PopGen: http://www.radford.edu/~rsheehy/Gen_flash/popgen/

• Glenn’s Resource-limited Population Growth materials: https://qubeshub.org/collections/post/3101

• HHMI Biointeractive modules on Lactase and Amylase

Invitation to Modeling draft paper

Rule of Five paper

Lactase persistence paper

Evolutionary forces with HWE

Evolutionary forces with HWE

PopGen software

Resource-limited growth

Slides takes you to the HTML presentation.  Many, if not all, images are clickable.

Slides

Slides on GitHub

DataCamp Group (FREE)

QUBES Software

Jupyter Notebooks

R/RStudio

Serenity

Most students have seen an exponential model for population growth and know that it predicts unlimited growth. Better models, such as the logistic growth model, should incorporate assumptions to account for limitation of resources. In this activity, participants collect data from a physical simulation of resource-limited growth, prepare a variety of graphs to visualize the data, construct a verbal model based on their observations and the graphs, and (for those who want to go this far) construct a symbolic model from the verbal model.

Presentation describing how the Double Helical model of DNA was determined and how it has helped us understand various biological processes and also design new molecules.

A collections of Video tutorials for using UCSF Chimera for:

1: Loading PDB coordinates into the software, manipulating the structure in 3D, and saving session.

2: Menus

3: Selecting parts of a protein structure

4: Analyzing and exploring a protein structure

5: Comparing the structures of two related proteins/domains and visualizing the superposed structures of these proteins/domains.

This file guides you to use UCSF Chimera to explore the structures of substrate-DNA and product-DNA bound complexes with a restriction enzyme.

Instructions for preparing your computer for visualizing and exploring structures from the Protein Data Bank