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Number of items: 111
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

Thyroid Hormone - Negative Feedback

sim46618 runs
negative feedback thyroid hormone metabolism biology
#2

Extinction Vortex

sim30141 runs
#3

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

sim44 runs
#4

Stock, Inflow, and Outflow with Atrazine

Simple stock and flow diagram. Flows linear.
sim64 runs
stock flow atrazine
#5

Evolving Bits N=40

sim2095 runs
evolution bits receptor substrate
#6

Chaos Theory: Strange Attractor

Manipulate the main variables of the Lorenz equation.
sim1538 runs
chaos theory Lorenz attractor manifold
#7

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.
sim1079 runs
circadian clock feedback loop
#8

Pattern with recessive single band

sim61891 runs
genetics
#9

Grant Finches Mobile

sim15 runs
#10

HPV and Adaptive Immune Response

sim6450 runs
HPV Antibodies feedback loops vaccine
#11

Steady State in Freshwater Ecosystems

sim27786 runs
#12

Oxytocin-P

sim18 runs
Biology
#13

Cell Cycle Simulation

sim1981 runs
Biology
#14

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.
sim1558 runs
Diversity Selection Evolution Receptor Antigen
#15

Fruit Fly with variable sample size

sim43 runs
#16

GLUT and Insulin

sim20 runs
#17

Photosynthesis Simulation - Simplified

sim38 runs
Environment Biology Science Ecology Education
#18

Extinction

sim
#19

Predator Prey Model - Mobile

sim50 runs
Biology
#20

Carbon in the Atmosphere - Graphic Input constant

sim28 runs
#21

Beta Cell Membrane Transport - Insulin Regulation

sim237 runs
Insulin Glucose Beta Cell
#22

Tryptophan Operon: A repressible system

sim52935 runs
#23

Recombination and Gene Linkage

sim78417 runs
#24

Exponential Growth

sim6620 runs
Biology Ecology
#25

HPV with Influenza A Humoral Immunity

Immune response of HPV
sim16615 runs
HPV antibodies biology Immunity
#26

Beta Cell Simulation - Split story

sim34981 runs
#27

Guppy Evolution

sim97314 runs
evolution biology genes
#28

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.
sim3154 runs
logistic growth carrying capacity
#29

Fruit Fly Choice

Simulation to model random behavior in a fruit fly choice chamber
sim772 runs
randomness random
#30

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)
sim13926 runs
system dynamics carbon climate
#31

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.
sim103500 runs
Inhibition negative feedback biology lactose operon
#32

SIR COVID-19 Coronavirus Simulation

sim12616 runs
Environment Biology Science Education SIR
#33

Catastrophic Regime Change in Aquatic Ecosystems

sim58070 runs
Ecology
#34

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.
sim14612 runs
Biology Science Education transformation DNA
#35

Illusions and Assumptions

sim175 runs
Biology Science
#36

The dynamics of photosynthesis - variable sample size

The dynamics of photosynthesis - variable sample size
sim89418 runs
photosynthesis sample size biology
#37

Photosynthesis Simulation with Variance

sim207853 runs
#38

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
#39

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.
sim110851 runs
diffusion surface area volume radius
#40

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.)
sim1537 runs
flows dynamic phosphorus
#41

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.
sim463696 runs
cellular respiration aerobic respiration ATP biology
#42

Uniform Circular Motion

sim119 runs
Science Education Circular Motion Physics
#43

Position, Velocity, and Acceleration Simulation

sim455 runs
Science
#44

Cell Cycle - Simpler 2020

sim42279 runs
Biology Science Education
#45

Evolution and Natural Selection

sim227671 runs
#46

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.
sim2139 runs
Environment Biology Science Ecology Education
#47

Cardiovascular Model

sim5517 runs
#48

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.
sim7207 runs
evolution biology natural selection
#49

Evolution of LAP Allele in Mussels

sim58137 runs
Evolution Natural Selection Cline
#50

Simple Genetics

sim80249 runs
#51

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.
sim70032 runs
metabolism respriation ATP biology
#52

Circadian Clock in the Mouse

Transcriptional Translational Feedback Loop in the Mouse
sim23193 runs
Mouse Circadian Clock
#53

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?
sim95955 runs
Genetics
#54

Lac Operon with Monod Bump

sim124929 runs
Lac Operon Gene Regulation mRNA
#55

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.
sim71439 runs
limiting nutrients ecosystem biology logistic growth
#56

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.
sim139713 runs
negative feedback loop Lotka-Volterra homeostasis predator-prey
#57

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.
sim114990 runs
infromation processing neurophysiology biology
#58

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.
sim95004 runs
transformation DNA biology
#59

Water Potential and Osmosis

Factors that affect the flow across a semi-permeable membrane.
sim275689 runs
#60

ATP Hydrolysis

sim3172 runs
Science ATP Free Energy Entropy
#61

Mechanical Energy and Kinematics

sim8 runs
Science Physics Energy Acceleration Velocity
#62

Oxytocin and Child Birth

sim164290 runs
#63

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.
sim8521 runs
asynchrony timing phenology climate change butterfly
#64

Population dynamics of white footed mouse

sim556422 runs
#65

Photosynthesis Model

sim1181203 runs
#66

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.
sim204944 runs
growth factors cyclins cell cycle cancer
#67

Photosynthesis with Variable Sample Sizes

Sample sizes of Photosynthesis stocks in an array
sim63953 runs, 76 downloads
Download Model
#68

Lactase Enzyme Simulation with Data Analysis

sim7306779 runs
#69

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?
sim207298 runs
Genetics
#70

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.
sim75414 runs
Biology Science Ecology Education
#71

Lactase with Variable Sample Sizes

Arrayed Lactase Model
sim604541 runs
Lactase array sample size biology
#72

Evolution with Heterozygous Advantage

Evolution of Populations: Genetic Drift, Natural Selection, and Mutations
sim7594 runs
evolution natural selection genetic drift
#73

Enzyme Diversity

sim320085 runs
enzyme biology substrate pepsin indicators
#74

Tesing Unknown Enzymes

sim167260 runs
enzymes
#75

Genotyping with Electrophoresis

sim31515 runs
biology inheritance DNA restriction enzyme
#76

Enzyme Diversity: Enzymes, Products, and Substrates

sim658814 runs
enzymes substrates products DNA trypsin
#77

Comparing COVID-19 with xxx

This model was copied from Jon Darkow:
model208 downloads
Download Model
Environment Biology Education
#78

insulin secretion

model118 downloads
Download Model
Biology
#79

TSH-TH Feedback

model120 downloads
Download Model
Biology
#80

Primary Candidate Election Model

model177 downloads
Download Model
Education
#81

Limiting Nutrients Model

model256 downloads
Download Model
Environment Ecology Education
#82

Signal Transduction Example

model119 downloads
Download Model
Biology Science
#83

TH v2

model106 downloads
Download Model
Biology
#84

Cellular Respriation: ID process flows

model126 downloads
Download Model
#85

Natural Selection Model v1

model195 downloads
Download Model
Biology
#86

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.
model188 downloads
Download Model
Biology Physiology Feedback
#87

Pop Growth v3

model126 downloads
Download Model
#88

OT Feedback

model139 downloads
Download Model
Biology
#89

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.
model135 downloads
Download Model
Biology Science Education natural selection evolution
#90

Cardiac Myocytes

model191 downloads
Download Model
Biology Education
#91

CR and ATP coupled reaction

model116 downloads
Download Model
Biology
#92

Epinephrine Signal Transduction

model469 downloads
Download Model
Biology Science Education
#93

p53 and Cell Cycle

model177 downloads
Download Model
Biology
#94

Two Variations - Population Growth

model117 downloads
Download Model
Biology Science Ecology Education
#95

Pop Growth with Resources v2

model106 downloads
Download Model
#96

Stock and Flow Teaching

model94 downloads
Download Model
Education
#97

Mechanical Energy Model

model9 downloads
Download Model
Science Physics Acceleration Velocity Potential Energy
#98

Modeling Constant Acceleration

model10 downloads
Download Model
Science Education Physics Acceleration Velocity
#99

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

This model was copied from Jon Darkow:
model441 downloads
Download Model
Environment Biology Education
#100

SIR Model for COVID-19

This model was copied from Jon Darkow: This model was copied from Jon Darkow:
model108 downloads
Download Model
Environment Biology Education
#101

Cellular Respiration Matter

model167 downloads
Download Model
#102

Hormone Sample 1

model168 downloads
Download Model
#103

Exponential Growth in Population - AF

Chapter 2: Modeling the Environment
model528 downloads
Download Model
#104

Logistic Growth Model

model597 downloads
Download Model
#105

Chapter 2.12

model349 downloads
Download Model
#106

SIR Model for Coronavirus (COVID-19)

model1113 downloads
Download Model
Environment Biology Education
#107

Chapter 2: Population Growth

Chapter 2 introduction
model462 downloads
Download Model
#108

Pop Growth v2

model86 downloads
Download Model
#109

TH v3

model103 downloads
Download Model
Biology
#110

CLD Example

diagram171 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™.