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Number of items: 125
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

SIR COVID-19 Coronavirus Simulation

sim17728 runs
Environment Biology Science Education SIR
#2

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

sim83 runs
#3

Stock, Inflow, and Outflow with Atrazine

Simple stock and flow diagram. Flows linear.
sim72 runs
stock flow atrazine
#4

Evolving Bits N=40

sim2517 runs
evolution bits receptor substrate
#5

Grant Finches Mobile

sim15 runs
#6

Oxytocin-P

sim28 runs
Biology
#7

Cell Cycle Simulation

sim2552 runs
Biology
#8

Fruit Fly with variable sample size

sim43 runs
#9

GLUT and Insulin

sim20 runs
#10

Extinction

sim
#11

Predator Prey Model - Mobile

sim58 runs
Biology
#12

Carbon in the Atmosphere - Graphic Input constant

sim28 runs
#13

Illusions and Assumptions

sim624 runs
Biology Science
#14

Photosynthesis Simulation with Variance

sim208339 runs
#15

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
#16

Uniform Circular Motion

sim561 runs
Science Education Circular Motion Physics
#17

Mechanical Energy and Kinematics

sim180 runs
Science Physics Energy Acceleration Velocity
#18

Oxytocin and Child Birth

sim209365 runs
#19

Evolution with Heterozygous Advantage

Evolution of Populations: Genetic Drift, Natural Selection, and Mutations
sim7647 runs
evolution natural selection genetic drift
#20

ATP Hydrolysis

sim5323 runs
Science ATP Free Energy Entropy
#21

Fruit Fly Choice

Simulation to model random behavior in a fruit fly choice chamber
sim955 runs
randomness random
#22

Chaos Theory: Strange Attractor

Manipulate the main variables of the Lorenz equation.
sim1964 runs
chaos theory Lorenz attractor manifold
#23

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.
sim11029 runs
evolution biology natural selection
#24

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.
sim133175 runs
Inhibition negative feedback biology lactose operon
#25

Ball Bet for Metacognition - Random

sim57 runs
Education
#26

Ball Bet 3.0.2

sim1 run
#27

Photosynthesis Simulation - Simplified

sim55 runs
Environment Biology Science Ecology Education
#28

Extinction Vortex

sim52372 runs
#29

Tesing Unknown Enzymes

sim227142 runs
enzymes
#30

Simple Genetics

sim111183 runs
#31

Enzyme Diversity: Enzymes, Products, and Substrates

sim925402 runs
enzymes substrates products DNA trypsin
#32

Slider Bets and Metacognition

sim80 runs
Education
#33

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)
sim15978 runs
system dynamics carbon climate
#34

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.
sim7440 runs
Environment Biology Science Ecology Education
#35

Guppy Evolution

sim155929 runs
evolution biology genes
#36

Cell Cycle - Simpler 2020

sim54021 runs
Biology Science Education
#37

Position, Velocity, and Acceleration Simulation

sim1577 runs
Science
#38

Ball Bet Code Generators for Answer Keys

sim435 runs
Education
#39

Exponential Growth

sim10128 runs
Biology Ecology
#40

Pattern with recessive single band

sim85800 runs
genetics
#41

Beta Cell Simulation - Split story

sim55330 runs
#42

Tryptophan Operon: A repressible system

sim78111 runs
#43

Beta Cell Membrane Transport - Insulin Regulation

sim259 runs
Insulin Glucose Beta Cell
#44

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.
sim1120 runs
circadian clock feedback loop
#45

Catastrophic Regime Change in Aquatic Ecosystems

sim94118 runs
Ecology
#46

HPV with Influenza A Humoral Immunity

Immune response of HPV
sim24584 runs
HPV antibodies biology Immunity
#47

The dynamics of photosynthesis - variable sample size

The dynamics of photosynthesis - variable sample size
sim89921 runs
photosynthesis sample size biology
#48

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.
sim4227 runs
logistic growth carrying capacity
#49

Genotyping with Electrophoresis

sim40951 runs
biology inheritance DNA restriction enzyme
#50

Photosynthesis with Variable Sample Sizes

Sample sizes of Photosynthesis stocks in an array
sim143196 runs, 102 downloads
Download Model
#51

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.)
sim2571 runs
flows dynamic phosphorus
#52

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.
sim1633 runs
Diversity Selection Evolution Receptor Antigen
#53

HPV and Adaptive Immune Response

sim9433 runs
HPV Antibodies feedback loops vaccine
#54

Neurophysiology and Information Processing 2022

sim6680 runs
Biology information processing neuron neurotransmission neurophysiology
#55

Water Potential and Osmosis

Factors that affect the flow across a semi-permeable membrane.
sim340788 runs
#56

Understanding Linear Motion

Understand linear motion with automated feedback.
sim589 runs
Science Education physics motion velocity
#57

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?
sim274476 runs
Genetics
#58

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?
sim157865 runs
Genetics
#59

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.
sim596181 runs
cellular respiration aerobic respiration ATP biology
#60

Recombination and Gene Linkage

sim114487 runs
#61

Evolution and Natural Selection

sim311406 runs
#62

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.
sim103190 runs
limiting nutrients ecosystem biology logistic growth
#63

Soybean and Aphid Dynamics

sim4 runs
Environment Biology Science Economics Ecology
#64

Enzyme Diversity

sim426140 runs
enzyme biology substrate pepsin indicators
#65

Steady State in Freshwater Ecosystems

sim32196 runs
#66

Photosynthesis Model

sim1997795 runs
#67

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.
sim144667 runs
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.
sim26579 runs
Biology Science Education transformation DNA
#69

Population dynamics of white footed mouse

sim995064 runs
#70

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.
sim267718 runs
growth factors cyclins cell cycle cancer
#71

Lactase Enzyme Simulation with Data Analysis

sim10007652 runs
#72

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.
sim220073 runs
infromation processing neurophysiology biology
#73

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.
sim94067 runs
metabolism respriation ATP biology
#74

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.
sim11054 runs
asynchrony timing phenology climate change butterfly
#75

Lactase with Variable Sample Sizes

Arrayed Lactase Model
sim729275 runs
Lactase array sample size biology
#76

Cardiovascular Model

sim18598 runs
#77

Evolution of LAP Allele in Mussels

sim70819 runs
Evolution Natural Selection Cline
#78

Thyroid Hormone - Negative Feedback

sim64980 runs
negative feedback thyroid hormone metabolism biology
#79

Circadian Clock in the Mouse

Transcriptional Translational Feedback Loop in the Mouse
sim28097 runs
Mouse Circadian Clock
#80

Soybean and Aphid Population Dynamics

sim137 runs
Biology Science
#81

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.
sim121565 runs
transformation DNA biology
#82

Lac Operon with Monod Bump

sim179921 runs
Lac Operon Gene Regulation mRNA
#83

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.
sim217997 runs
negative feedback loop Lotka-Volterra homeostasis predator-prey
#84

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.
sim131629 runs
diffusion surface area volume radius
#85

Pendulum Model

sim14 runs
Science Education Physics Simple Harmonic Motion Pendulum
#86

Signal Transduction Example

model605 downloads
Download Model
Biology Science
#87

Pop Growth v3

model703 downloads
Download Model
#88

Limiting Nutrients Model

model772 downloads
Download Model
Environment Ecology Education
#89

Comparing COVID-19 with xxx

This model was copied from Jon Darkow:
model731 downloads
Download Model
Environment Biology Education
#90

TH v3

model604 downloads
Download Model
Biology
#91

Exponential Growth in Population - AF

Chapter 2: Modeling the Environment
model1005 downloads
Download Model
#92

Chapter 2: Population Growth

Chapter 2 introduction
model930 downloads
Download Model
#93

Hormone Sample 1

model670 downloads
Download Model
#94

TH v2

model606 downloads
Download Model
Biology
#95

Pop Growth with Resources v2

model647 downloads
Download Model
#96

Stock and Flow Teaching

model706 downloads
Download Model
Education
#97

Cellular Respriation: ID process flows

model616 downloads
Download Model
#98

Pop Growth v2

model618 downloads
Download Model
#99

insulin secretion

model631 downloads
Download Model
Biology
#100

Modeling Constant Acceleration

model594 downloads
Download Model
Science Education Physics Acceleration Velocity
#101

Primary Candidate Election Model

model687 downloads
Download Model
Education
#102

Epinephrine Signal Transduction

model1076 downloads
Download Model
Biology Science Education
#103

Two Variations - Population Growth

model668 downloads
Download Model
Biology Science Ecology Education
#104

p53 and Cell Cycle

model690 downloads
Download Model
Biology
#105

Cellular Respiration Matter

model723 downloads
Download Model
#106

SIR Model for COVID-19

This model was copied from Jon Darkow: This model was copied from Jon Darkow:
model614 downloads
Download Model
Environment Biology Education
#107

Mechanical Energy Model

model535 downloads
Download Model
Science Physics Acceleration Velocity Potential Energy
#108

CR and ATP coupled reaction

model674 downloads
Download Model
Biology
#109

SIR Model for Coronavirus (COVID-19)

model1872 downloads
Download Model
Environment Biology Education
#110

Something

model479 downloads
Download Model
#111

model1-mrd

model412 downloads
Download Model
#112

pendcopy

This model was copied from Gaye Ceyhan:
model431 downloads
Download Model
#113

Cardiac Myocytes

model925 downloads
Download Model
Biology Education
#114

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

This model was copied from Jon Darkow:
model1014 downloads
Download Model
Environment Biology Education
#115

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.
model678 downloads
Download Model
Biology Physiology Feedback
#116

Natural Selection Model v1

model748 downloads
Download Model
Biology
#117

Chapter 2.12

model861 downloads
Download Model
#118

TSH-TH Feedback

model650 downloads
Download Model
Biology
#119

Logistic Growth Model

model1100 downloads
Download Model
#120

OT Feedback

model693 downloads
Download Model
Biology
#121

Force and Position

model477 downloads
Download Model
Science physics
#122

Model1

model380 downloads
Download Model
#123

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.
model729 downloads
Download Model
Biology Science Education natural selection evolution
#124

CLD Example

diagram712 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™.