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Number of items: 123
Date joined: Apr 05 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

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

sim76 runs
#2

Stock, Inflow, and Outflow with Atrazine

Simple stock and flow diagram. Flows linear.
sim72 runs
stock flow atrazine
#3

Evolving Bits N=40

sim2409 runs
evolution bits receptor substrate
#4

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.
sim1084 runs
circadian clock feedback loop
#5

Grant Finches Mobile

sim15 runs
#6

Oxytocin-P

sim28 runs
Biology
#7

Steady State in Freshwater Ecosystems

sim31470 runs
#8

Cell Cycle Simulation

sim2552 runs
Biology
#9

Fruit Fly with variable sample size

sim43 runs
#10

GLUT and Insulin

sim20 runs
#11

Extinction

sim
#12

Predator Prey Model - Mobile

sim58 runs
Biology
#13

Carbon in the Atmosphere - Graphic Input constant

sim28 runs
#14

Beta Cell Membrane Transport - Insulin Regulation

sim255 runs
Insulin Glucose Beta Cell
#15

SIR COVID-19 Coronavirus Simulation

sim17234 runs
Environment Biology Science Education SIR
#16

Illusions and Assumptions

sim520 runs
Biology Science
#17

Photosynthesis Simulation with Variance

sim208311 runs
#18

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.
sim46458 runs
Neurophysiology toxins sarin VX TTX
#19

Uniform Circular Motion

sim471 runs
Science Education Circular Motion Physics
#20

Evolution of LAP Allele in Mussels

sim65434 runs
Evolution Natural Selection Cline
#21

Circadian Clock in the Mouse

Transcriptional Translational Feedback Loop in the Mouse
sim26686 runs
Mouse Circadian Clock
#22

Mechanical Energy and Kinematics

sim138 runs
Science Physics Energy Acceleration Velocity
#23

Oxytocin and Child Birth

sim206540 runs
#24

Evolution with Heterozygous Advantage

Evolution of Populations: Genetic Drift, Natural Selection, and Mutations
sim7634 runs
evolution natural selection genetic drift
#25

ATP Hydrolysis

sim5070 runs
Science ATP Free Energy Entropy
#26

Fruit Fly Choice

Simulation to model random behavior in a fruit fly choice chamber
sim939 runs
randomness random
#27

Chaos Theory: Strange Attractor

Manipulate the main variables of the Lorenz equation.
sim1833 runs
chaos theory Lorenz attractor manifold
#28

Thyroid Hormone - Negative Feedback

sim62118 runs
negative feedback thyroid hormone metabolism biology
#29

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.
sim202968 runs
infromation processing neurophysiology biology
#30

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.
sim9504 runs
evolution biology natural selection
#31

Ball Bet for Metacognition - Random

sim45 runs
Education
#32

Ball Bet 3.0.2

sim
#33

Photosynthesis Simulation - Simplified

sim50 runs
Environment Biology Science Ecology Education
#34

Cardiovascular Model

sim13027 runs
#35

Extinction Vortex

sim43458 runs
#36

Lactase Enzyme Simulation with Data Analysis

sim9617072 runs
#37

Tesing Unknown Enzymes

sim202440 runs
enzymes
#38

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.
sim91888 runs
metabolism respriation ATP biology
#39

Simple Genetics

sim108114 runs
#40

Slider Bets and Metacognition

sim77 runs
Education
#41

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)
sim15341 runs
system dynamics carbon climate
#42

Guppy Evolution

sim138868 runs
evolution biology genes
#43

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.
sim5673 runs
Environment Biology Science Ecology Education
#44

Enzyme Diversity: Enzymes, Products, and Substrates

sim887171 runs
enzymes substrates products DNA trypsin
#45

Cell Cycle - Simpler 2020

sim51611 runs
Biology Science Education
#46

Position, Velocity, and Acceleration Simulation

sim1391 runs
Science
#47

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.
sim112126 runs
transformation DNA biology
#48

Exponential Growth

sim9300 runs
Biology Ecology
#49

Ball Bet Code Generators for Answer Keys

sim291 runs
Education
#50

Pattern with recessive single band

sim80169 runs
genetics
#51

Beta Cell Simulation - Split story

sim52520 runs
#52

Photosynthesis Model

sim1813986 runs
#53

Tryptophan Operon: A repressible system

sim68696 runs
#54

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.
sim565708 runs
cellular respiration aerobic respiration ATP biology
#55

Catastrophic Regime Change in Aquatic Ecosystems

sim85011 runs
Ecology
#56

HPV with Influenza A Humoral Immunity

Immune response of HPV
sim23914 runs
HPV antibodies biology Immunity
#57

The dynamics of photosynthesis - variable sample size

The dynamics of photosynthesis - variable sample size
sim89888 runs
photosynthesis sample size biology
#58

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.
sim10697 runs
asynchrony timing phenology climate change butterfly
#59

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.
sim3906 runs
logistic growth carrying capacity
#60

Genotyping with Electrophoresis

sim38418 runs
biology inheritance DNA restriction enzyme
#61

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.
sim258598 runs
growth factors cyclins cell cycle cancer
#62

Photosynthesis with Variable Sample Sizes

Sample sizes of Photosynthesis stocks in an array
sim127532 runs, 98 downloads
Download Model
#63

Neurophysiology and Information Processing 2022

sim5277 runs
Biology information processing neuron neurotransmission neurophysiology
#64

HPV and Adaptive Immune Response

sim8713 runs
HPV Antibodies feedback loops vaccine
#65

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.
sim1628 runs
Diversity Selection Evolution Receptor Antigen
#66

Water Potential and Osmosis

Factors that affect the flow across a semi-permeable membrane.
sim331077 runs
#67

Understanding Linear Motion

Understand linear motion with automated feedback.
sim389 runs
Science Education physics motion velocity
#68

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?
sim261351 runs
Genetics
#69

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?
sim131775 runs
Genetics
#70

Enzyme Diversity

sim415293 runs
enzyme biology substrate pepsin indicators
#71

Recombination and Gene Linkage

sim107113 runs
#72

Evolution and Natural Selection

sim281218 runs
#73

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.
sim124394 runs
Biology Science Ecology Education
#74

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.
sim96543 runs
limiting nutrients ecosystem biology logistic growth
#75

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.
sim120139 runs
Inhibition negative feedback biology lactose operon
#76

Lac Operon with Monod Bump

sim163912 runs
Lac Operon Gene Regulation mRNA
#77

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.
sim21597 runs
Biology Science Education transformation DNA
#78

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.)
sim2282 runs
flows dynamic phosphorus
#79

Population dynamics of white footed mouse

sim869178 runs
#80

Lactase with Variable Sample Sizes

Arrayed Lactase Model
sim701660 runs
Lactase array sample size biology
#81

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.
sim199216 runs
negative feedback loop Lotka-Volterra homeostasis predator-prey
#82

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.
sim130131 runs
diffusion surface area volume radius
#83

Pendulum Model

sim14 runs
Science Education Physics Simple Harmonic Motion Pendulum
#84

TSH-TH Feedback

model230 downloads
Download Model
Biology
#85

Signal Transduction Example

model229 downloads
Download Model
Biology Science
#86

Pop Growth v3

model268 downloads
Download Model
#87

Limiting Nutrients Model

model378 downloads
Download Model
Environment Ecology Education
#88

Chapter 2.12

model449 downloads
Download Model
#89

Logistic Growth Model

model697 downloads
Download Model
#90

Cardiac Myocytes

model489 downloads
Download Model
Biology Education
#91

Comparing COVID-19 with xxx

This model was copied from Jon Darkow:
model328 downloads
Download Model
Environment Biology Education
#92

OT Feedback

model260 downloads
Download Model
Biology
#93

TH v3

model208 downloads
Download Model
Biology
#94

Hormone Sample 1

model280 downloads
Download Model
#95

Chapter 2: Population Growth

Chapter 2 introduction
model563 downloads
Download Model
#96

Exponential Growth in Population - AF

Chapter 2: Modeling the Environment
model633 downloads
Download Model
#97

TH v2

model214 downloads
Download Model
Biology
#98

Natural Selection Model v1

model331 downloads
Download Model
Biology
#99

Cellular Respriation: ID process flows

model231 downloads
Download Model
#100

insulin secretion

model243 downloads
Download Model
Biology
#101

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

This model was copied from Jon Darkow:
model576 downloads
Download Model
Environment Biology Education
#102

Stock and Flow Teaching

model264 downloads
Download Model
Education
#103

Pop Growth v2

model189 downloads
Download Model
#104

Pop Growth with Resources v2

model223 downloads
Download Model
#105

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.
model309 downloads
Download Model
Biology Physiology Feedback
#106

Primary Candidate Election Model

model286 downloads
Download Model
Education
#107

Epinephrine Signal Transduction

model653 downloads
Download Model
Biology Science Education
#108

Modeling Constant Acceleration

model143 downloads
Download Model
Science Education Physics Acceleration Velocity
#109

Two Variations - Population Growth

model231 downloads
Download Model
Biology Science Ecology Education
#110

Force and Position

model33 downloads
Download Model
Science physics
#111

p53 and Cell Cycle

model304 downloads
Download Model
Biology
#112

Cellular Respiration Matter

model299 downloads
Download Model
#113

SIR Model for COVID-19

This model was copied from Jon Darkow: This model was copied from Jon Darkow:
model241 downloads
Download Model
Environment Biology Education
#114

Mechanical Energy Model

model140 downloads
Download Model
Science Physics Acceleration Velocity Potential Energy
#115

CR and ATP coupled reaction

model242 downloads
Download Model
Biology
#116

Something

model61 downloads
Download Model
#117

Differential Reproduction, Natural Selection Model

This is the fourth model in a sequence of models to show the logic of natural selection, formalized ... Read more
This is the fourth model in a sequence of models to show the logic of natural selection, formalized by Earnst Mayr. Mayr E. The growth of biological thought. Cambridge: Harvard University Press; 1982.
model279 downloads
Download Model
Biology Science Education natural selection evolution
#118

SIR Model for Coronavirus (COVID-19)

model1368 downloads
Download Model
Environment Biology Education
#119

model1-mrd

model10 downloads
Download Model
#120

Model1

model10 downloads
Download Model
#121

pendcopy

This model was copied from Gaye Ceyhan:
model2 downloads
Download Model
#122

CLD Example

diagram288 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 isee 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™.