profile image
Number of items: 89
Date joined: Apr 04 2016

Jon Darkow has taught a variety of biology courses at the high school and college level for the past ...Read more Jon Darkow has taught a variety of biology courses at the high school and college level for the past 15 years at Seneca East High School and through Bowling Green State University. Currently, Jon teaches Biology, AP Biology, and Anatomy and Physiology. Additionally, he teaches Instructional Technologies to educators in Seneca County. Jon has a diverse academic training with a B.A. in Sociology from Ohio State University in 2000. He has a post-bachelors in Life Science Education and an M.Ed. in Curriculum and Instruction from Ashland University where he received The Most Outstanding Professional Educator Award in 2007. Jon Darkow was the 2016 recipient of the Outstanding Biology Teacher Award from the National Association of Biology Teachers. Jon is most interested in teaching scientific reasoning and systems thinking using system dynamics modeling. Hide full description


Jon Darkow's Work

#1

Evolution and Natural Selection

sim160795 runs
#2

Photosynthesis Model

sim227408 runs
#3

Water Potential and Osmosis

Factors that affect the flow across a semi-permeable membrane.
sim142018 runs
#4

Cardiovascular Model

sim0 runs 0 views
#5

Population dynamics of white footed mouse

sim239405 runs
#6

Steady State in Freshwater Ecosystems

sim21516 runs
#7

Extinction Vortex

sim10697 runs
#8

Phenology of the Karner Blue Butterfly

Karner Blue butterfly is an endangered species. Habitat loss and climate change are contributing fac ... Read more
Karner Blue butterfly is an endangered species. Habitat loss and climate change are contributing factors to the reduction in the butterflies' population sizes. Climate change can alter the timing of lifecycles. When climate change disproportionally affects the timing of life cycles of species in an ecosystem asynchrony within a food web occurs.
sim6460 runs
asynchrony timing phenology climate change butterfly
#9

Lactase Enzyme Simulation with Data Analysis

sim3232286 runs
#10

Evolution with Heterozygous Advantage

Evolution of Populations: Genetic Drift, Natural Selection, and Mutations
sim4899 runs
evolution natural selection genetic drift
#11

Cellular Respiration Accounting Model

The purpose of the model is to understand how glucose is metabolized, and how the energy stored in i ... Read more
The purpose of the model is to understand how glucose is metabolized, and how the energy stored in its chemical bonds is transfered.
sim137373 runs
cellular respiration aerobic respiration ATP biology
#12

Information Processing and Neurophysiology Model

The main dependent variable measured in the model is the membrane potential (millivolts) of two diff ... Read more
The main dependent variable measured in the model is the membrane potential (millivolts) of two different neurons in a series. You will be able to add excitatory and inhibitory neurotransmitters, and compare how these modulate electrical impulses of the two neurons. Additionally, you will be able to compare the effects of three neurotoxins: Tetrodotoxin, botulinum toxin, and sarin nerve gas. While extremely lethal, these toxins are very instructive in understanding neurons because of the specific way the toxins act. Each toxin modifies or inhibits a specific molecule in neurons that help process and transmit information.
sim84021 runs
infromation processing neurophysiology biology
#13

Logistic Growth Model and the Butterfly Effect

Model allows users to test the starting population size (N), the carrying capacity of the populatio ... Read more
Model allows users to test the starting population size (N), the carrying capacity of the population (K), and the intrinsic rate of growth (r max). Iterations are discrete, not continuous.
sim1718 runs
logistic growth carrying capacity
#14

Growth Factors, Cyclins, and Cancer

Explores the feedback loops that regulate the cell cycle. Model focuses on manipulating stimuli (gro ... Read more
Explores the feedback loops that regulate the cell cycle. Model focuses on manipulating stimuli (growth factors), to stimulate the cell cycle feedback loops.
sim101814 runs
growth factors cyclins cell cycle cancer
#15

Apterous Genetics

Apterous is an allele that results in a fly without wings. Wild-type variants have normally function ... Read more
Apterous is an allele that results in a fly without wings. Wild-type variants have normally functioning wings. The goal of this simulation is to determine the pattern of inheritance for the apterous phenotype. Is apterous dominant or recessive? Sex-linked or autosomal? Complete, incomplete, or codominant?
sim111906 runs
Genetics
#16

White-Eyed Genetics

White-eyed is an allele that results in a fly white eyes. Wild-type variants have red eyes. The ... Read more
White-eyed is an allele that results in a fly white eyes. Wild-type variants have red eyes. The goal of this simulation is to determine the pattern of inheritance for the white-eyed phenotype. Is yellow body dominant or recessive? Sex-linked or autosomal? Complete, incomplete, or codominant?
sim38272 runs
Genetics
#17

Recombination and Gene Linkage

sim46930 runs
#18

Transformation Simulation

Simulation allows students to test the transformation principle. Two major goals of the experiment a ... Read more
Simulation allows students to test the transformation principle. Two major goals of the experiment are: 1. Allow users to see that supernatant from heat-killed bacteria can transform the genes of another bacterium. 2. What transforms the inheritance of the bacteria is DNA, not RNA or proteins.
sim20657 runs
transformation DNA biology
#19

Lactose Operon: An Inducible System

In this simulation users explore the negative feedback system of the Lactose Operon found in bacteri ... Read more
In this simulation users explore the negative feedback system of the Lactose Operon found in bacteria. Lactose induces the system by inhibiting and inhibitor.
sim58144 runs
Inhibition negative feedback biology lactose operon
#20

Tryptophan Operon: A repressible system

sim22831 runs
#21

Evolution of LAP Allele in Mussels

sim42691 runs
Evolution Natural Selection Cline
#22

HPV and Adaptive Immune Response

sim4238 runs
HPV Antibodies feedback loops vaccine
#23

Thyroid Hormone - Negative Feedback

sim15119 runs
negative feedback thyroid hormone metabolism biology
#24

Chaos Theory: Strange Attractor

Manipulate the main variables of the Lorenz equation.
sim871 runs
chaos theory Lorenz attractor manifold
#25

Neurophysiology and Neurotoxicity

The main dependent variable measured in the model is the membrane potential (millivolts) of a motor ... Read more
The main dependent variable measured in the model is the membrane potential (millivolts) of a motor neuron and the muscle fiber it innervates. You will be able to add excitatory and inhibitory neurotransmitters, and compare how neurotransmitters modulate the electrical impulses of the motor neuron and the muscle fiber. Additionally, you will be able to compare the effects of four neurotoxins: Tetrodotoxin, botulinum toxin, sarin nerve gas, and VX. While extremely lethal, these toxins are very instructive in understanding neurons because of the specific way the toxins act. Each toxin modifies or inhibits a specific molecule in neurons that help process and transmit information.
sim30452 runs
Neurophysiology toxins sarin VX TTX
#26

Stock, Inflow, and Outflow with Atrazine

Simple stock and flow diagram. Flows linear.
sim51 runs
stock flow atrazine
#27

Tick Tock: The Biological Clock and Circadian Rhythm

Explore gene expression of the transcriptional-translational feedback loop (TTFL) of the mouse circa ... Read more
Explore gene expression of the transcriptional-translational feedback loop (TTFL) of the mouse circadian rhythm.
sim825 runs
circadian clock feedback loop
#28

Carbon in the Atmosphere - Graphic Input constant

sim28 runs
#29

The dynamics of photosynthesis - variable sample size

The dynamics of photosynthesis - variable sample size
sim12599 runs
photosynthesis sample size biology
#30

Photosynthesis with Variable Sample Sizes

Sample sizes of Photosynthesis stocks in an array
sim31748 runs, 49 downloads
Download Model
#31

Lactase with Variable Sample Sizes

Arrayed Lactase Model
sim265323 runs
Lactase array sample size biology
#32

Evolution: Grants Finches

Models the effects on population sizes of ground finches with different beak sizes in response to di ... Read more
Models the effects on population sizes of ground finches with different beak sizes in response to different amounts of annual precipitation.
sim4080 runs
evolution biology natural selection
#33

Lac Operon with Monod Bump

sim60121 runs
Lac Operon Gene Regulation mRNA
#34

Grant Finches Mobile

sim13 runs
#35

Cellular Respiration Inquiry

Model of the dynamics of the metabolism of one mole of glucose. Randomness is built into the computa ... Read more
Model of the dynamics of the metabolism of one mole of glucose. Randomness is built into the computations.
sim40032 runs
metabolism respriation ATP biology
#36

Oxytocin and Child Birth

sim57330 runs
#37

Limiting Nutrients in Aquatic Ecosystems

Experiment with a variety of nutrients that are limited by different degrees in four different ecosy ... Read more
Experiment with a variety of nutrients that are limited by different degrees in four different ecosystems.
sim40766 runs
limiting nutrients ecosystem biology logistic growth
#38

Diffusion of a Spherical Cell

Why are cells small? This model allows users to see how the size of a sphere affects the rate of dif ... Read more
Why are cells small? This model allows users to see how the size of a sphere affects the rate of diffusion.
sim59020 runs
diffusion surface area volume radius
#39

System Dynamics of Carbon Budget

Simulation of the system dynamics of the global carbon dioxide budget based on the work on systems d ... Read more
Simulation of the system dynamics of the global carbon dioxide budget based on the work on systems dynamics based on John Sternman (MIT) and Krytyna Stave (University of Nebraska)
sim9249 runs
system dynamics carbon climate
#40

Circadian Clock in the Mouse

Transcriptional Translational Feedback Loop in the Mouse
sim15294 runs
Mouse Circadian Clock
#41

Fruit Fly Choice

Simulation to model random behavior in a fruit fly choice chamber
sim272 runs
randomness random
#42

Fruit Fly with variable sample size

sim42 runs
#43

GLUT and Insulin

sim15 runs
#44

Genotyping with Electrophoresis

sim5241 runs
biology inheritance DNA restriction enzyme
#45

Pattern with recessive single band

sim26023 runs
genetics
#46

Simple Genetics

sim27961 runs
#47

Evolving Bits

Diversity and selection for the basis of evolution. This simple model tries to illustrate these conc ... Read more
Diversity and selection for the basis of evolution. This simple model tries to illustrate these concepts.
sim1438 runs
Diversity Selection Evolution Receptor Antigen
#48

Catastrophic Regime Change in Aquatic Ecosystems

sim22890 runs
Ecology
#49

Evolving Bits N=40

sim1566 runs
evolution bits receptor substrate
#50

Tesing Unknown Enzymes

sim38821 runs
enzymes
#51

Enzyme Diversity

sim113819 runs
enzyme biology substrate pepsin indicators
#52

Photosynthesis Simulation with Variance

sim207024 runs
#53

Beta Cell Membrane Transport - Insulin Regulation

sim218 runs
Insulin Glucose Beta Cell
#54

Enzyme Diversity: Enzymes, Products, and Substrates

sim227229 runs
enzymes substrates products DNA trypsin
#55

Beta Cell Simulation - Split story

sim10872 runs
#56

Guppy Evolution

sim31597 runs
evolution biology genes
#57

HPV with Influenza A Humoral Immunity

Immune response of HPV
sim6144 runs
HPV antibodies biology Immunity
#58

Lotka-Volterra Predator-Prey Model

Explore my favorite aspect of system dynamics and a historic example. The homeostasis generated by t ... Read more
Explore my favorite aspect of system dynamics and a historic example. The homeostasis generated by the interconnections of a negative feedback loop governs much of life.
sim62430 runs
negative feedback loop Lotka-Volterra homeostasis predator-prey
#59

Phosphorus in Lake: Changes to Flows in a Dynamic System

This model allows users to experiment with a very simple dynamic system: one stock (Phosphorus in a ... Read more
This model allows users to experiment with a very simple dynamic system: one stock (Phosphorus in a lake), an inflow (added P/day), and an outflow (removed P/day). The flows can either be constant throughout the simulation run, or dynamic (changing throughout the simulation run.)
sim678 runs
flows dynamic phosphorus
#60

Student Model (X. Hicks and J. Margraf) - HIV

sim35 runs
#61

Extinction

sim0 views
#62

Cell Cycle Simulation

sim701 runs
Biology
#63

Predator Prey Model - Mobile

sim20 runs
Biology
#64

Exponential Growth

sim4418 runs
Biology Ecology
#65

ATP Hydrolysis

sim396 runs
Science ATP Free Energy Entropy
#66

SIR COVID-19 Coronavirus Simulation

sim4580 runs
Environment Biology Science Education SIR
#67

Carbon Cycle Simulation

Simulation tracks the movement of carbon to and from the atmosphere in Gt C (and Gt CO2). Users can ... Read more
Simulation tracks the movement of carbon to and from the atmosphere in Gt C (and Gt CO2). Users can manipulate with graphical inputs the changes in fossil fuel emissions, land-use, and ocean sinks.
sim564 runs
Environment Biology Science Ecology Education
#68

Transformation Experiment with Controls

Simulation allows users to test the bacterial transformation principle discovered by Frederick Griff ... Read more
Simulation allows users to test the bacterial transformation principle discovered by Frederick Griffith.
sim579 runs
Biology Science Education transformation DNA
#69

Evolution of Antibiotic Resistance Simulation

Evolution of Antibiotic Resistance Simulation. This model tracks the accumulation of 40 colonies of ... Read more
Evolution of Antibiotic Resistance Simulation. This model tracks the accumulation of 40 colonies of bacteria. The main purpose of the model is to show that new adaptations are not caused by an environmental factor, like antibiotics. Rather, new adaptations are the selection of available variations. In this model you can increase variations by increasing the UV dose. The UV dose increases the mutation rate with a Monte Carlo function.
sim3726 runs
Biology Science Ecology Education
#70

Photosynthesis Simulation - Simplified

sim8 runs
Environment Biology Science Ecology Education
#71

Exponential Growth in Population - AF

Chapter 2: Modeling the Environment
model410 downloads
Download Model
#72

Chapter 2: Population Growth

Chapter 2 introduction
model321 downloads
Download Model
#73

Chapter 2.12

model238 downloads
Download Model
#74

Logistic Growth Model

model479 downloads
Download Model
#75

Natural Selection Model v1

model65 downloads
Download Model
Biology
#76

Endocrine System Dynamics

This model shows how FSH regulates the reproductive cycle in females, and how diseases may emerge fr ... Read more
This model shows how FSH regulates the reproductive cycle in females, and how diseases may emerge from underproduction and excess production of the hormone. This model was developed for a high school Anatomy and Physiology class.
model58 downloads
Download Model
Biology Physiology Feedback
#77

SIR Model for Coronavirus (COVID-19)

model703 downloads
Download Model
Environment Biology Education
#78

Hormone Sample 1

model53 downloads
Download Model
#79

Cellular Respiration Matter

model54 downloads
Download Model
#80

Cardiac Myocytes

model56 downloads
Download Model
Biology Education
#81

Primary Candidate Election Model

model55 downloads
Download Model
Education
#82

SIR Model for Coronavirus (COVID-19) - with social distancing

This model was copied from Jon Darkow:
model214 downloads
Download Model
Environment Biology Education
#83

Comparing COVID-19 with xxx

This model was copied from Jon Darkow:
model57 downloads
Download Model
Environment Biology Education
#84

Limiting Nutrients Model

model57 downloads
Download Model
Environment Ecology Education
#85

Cellular Respriation: ID process flows

model2 downloads
Download Model
#86

CR and ATP coupled reaction

model3 downloads
Download Model
Biology
#87

Signal Transduction Example

model0 views
Download Model
Biology Science
#88

CLD Example

diagram61 downloads
Download Model
Biology
X

Sim App (Sim)

An interface that allows users to interact with a model.

Image of a sim

Sim apps allow users to interact with a model using buttons, sliders, knobs, tables, graphs, and storytelling. These interactions help users understand how parts of a system interact.

Interfaces are created by model authors in the Stella desktop software and can be uploaded to the isee Exchange.

Model

A diagram that represents how elements in a system influence one another.

Image of a model

Models are mathematical representations of how elements in a system are connected and interact (e.g., ecosystems, organizations, supply chains). When running models on the Exchange, results can be viewed in output devices like graphs and tables.

Models appear in the isee Exchange directory when authors upload them from the Stella® desktop software or create them with Stella Online™.

Causal Loop Diagram (CLD)

A map that represents the feedback structure of a system.

Image of a CLD

CLDs are high-level maps that represents the feedback structure of a system and easily communicate the essence of a model. They appear in the isee Exchange when authors upload them from the Stella desktop software or create them with Stella Online™.