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Number of items: 112
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

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

sim44 runs
#2

Stock, Inflow, and Outflow with Atrazine

Simple stock and flow diagram. Flows linear.
sim70 runs
stock flow atrazine
#3

Evolving Bits N=40

sim2243 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.
sim1083 runs
circadian clock feedback loop
#5

Grant Finches Mobile

sim15 runs
#6

HPV and Adaptive Immune Response

sim7917 runs
HPV Antibodies feedback loops vaccine
#7

Steady State in Freshwater Ecosystems

sim29154 runs
#8

Oxytocin-P

sim28 runs
Biology
#9

Cell Cycle Simulation

sim1988 runs
Biology
#10

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.
sim1595 runs
Diversity Selection Evolution Receptor Antigen
#11

Fruit Fly with variable sample size

sim43 runs
#12

GLUT and Insulin

sim20 runs
#13

Extinction

sim
#14

Predator Prey Model - Mobile

sim50 runs
Biology
#15

Carbon in the Atmosphere - Graphic Input constant

sim28 runs
#16

Beta Cell Membrane Transport - Insulin Regulation

sim243 runs
Insulin Glucose Beta Cell
#17

Exponential Growth

sim7058 runs
Biology Ecology
#18

HPV with Influenza A Humoral Immunity

Immune response of HPV
sim20441 runs
HPV antibodies biology Immunity
#19

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)
sim14470 runs
system dynamics carbon climate
#20

Illusions and Assumptions

sim274 runs
Biology Science
#21

SIR COVID-19 Coronavirus Simulation

sim14635 runs
Environment Biology Science Education SIR
#22

Photosynthesis Simulation with Variance

sim208105 runs
#23

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
#24

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.
sim114752 runs
diffusion surface area volume radius
#25

Uniform Circular Motion

sim295 runs
Science Education Circular Motion Physics
#26

Position, Velocity, and Acceleration Simulation

sim690 runs
Science
#27

Evolution of LAP Allele in Mussels

sim62150 runs
Evolution Natural Selection Cline
#28

Simple Genetics

sim96208 runs
#29

Circadian Clock in the Mouse

Transcriptional Translational Feedback Loop in the Mouse
sim25451 runs
Mouse Circadian Clock
#30

Lac Operon with Monod Bump

sim152916 runs
Lac Operon Gene Regulation mRNA
#31

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.
sim82072 runs
limiting nutrients ecosystem biology logistic growth
#32

Catastrophic Regime Change in Aquatic Ecosystems

sim67269 runs
Ecology
#33

Pattern with recessive single band

sim77043 runs
genetics
#34

Mechanical Energy and Kinematics

sim39 runs
Science Physics Energy Acceleration Velocity
#35

Oxytocin and Child Birth

sim173243 runs
#36

Evolution with Heterozygous Advantage

Evolution of Populations: Genetic Drift, Natural Selection, and Mutations
sim7602 runs
evolution natural selection genetic drift
#37

Enzyme Diversity: Enzymes, Products, and Substrates

sim720533 runs
enzymes substrates products DNA trypsin
#38

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.
sim497703 runs
cellular respiration aerobic respiration ATP biology
#39

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.
sim116863 runs
Inhibition negative feedback biology lactose operon
#40

Fruit Fly Choice

Simulation to model random behavior in a fruit fly choice chamber
sim907 runs
randomness random
#41

Photosynthesis with Variable Sample Sizes

Sample sizes of Photosynthesis stocks in an array
sim86160 runs, 80 downloads
Download Model
#42

Tryptophan Operon: A repressible system

sim66694 runs
#43

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.
sim161091 runs
negative feedback loop Lotka-Volterra homeostasis predator-prey
#44

Water Potential and Osmosis

Factors that affect the flow across a semi-permeable membrane.
sim281921 runs
#45

ATP Hydrolysis

sim3729 runs
Science ATP Free Energy Entropy
#46

Extinction Vortex

sim34845 runs
#47

Enzyme Diversity

sim350772 runs
enzyme biology substrate pepsin indicators
#48

Chaos Theory: Strange Attractor

Manipulate the main variables of the Lorenz equation.
sim1637 runs
chaos theory Lorenz attractor manifold
#49

Thyroid Hormone - Negative Feedback

sim51546 runs
negative feedback thyroid hormone metabolism biology
#50

Neurophysiology and Information Processing 2022

sim2943 runs
Biology information processing neuron neurotransmission neurophysiology
#51

Tesing Unknown Enzymes

sim180862 runs
enzymes
#52

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.
sim19008 runs
Biology Science Education transformation DNA
#53

The dynamics of photosynthesis - variable sample size

The dynamics of photosynthesis - variable sample size
sim89766 runs
photosynthesis sample size biology
#54

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.
sim3347 runs
logistic growth carrying capacity
#55

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.
sim3225 runs
Environment Biology Science Ecology Education
#56

Evolution and Natural Selection

sim267340 runs
#57

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.
sim104609 runs
Biology Science Ecology Education
#58

Cell Cycle - Simpler 2020

sim45217 runs
Biology Science Education
#59

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.
sim8993 runs
evolution biology natural selection
#60

Recombination and Gene Linkage

sim95359 runs
#61

Photosynthesis Simulation - Simplified

sim46 runs
Environment Biology Science Ecology Education
#62

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.
sim223014 runs
growth factors cyclins cell cycle cancer
#63

Lactase Enzyme Simulation with Data Analysis

sim7945912 runs
#64

Population dynamics of white footed mouse

sim674092 runs
#65

Lactase with Variable Sample Sizes

Arrayed Lactase Model
sim640663 runs
Lactase array sample size biology
#66

Cardiovascular Model

sim8233 runs
#67

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?
sim119292 runs
Genetics
#68

Genotyping with Electrophoresis

sim35213 runs
biology inheritance DNA restriction enzyme
#69

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.)
sim1764 runs
flows dynamic phosphorus
#70

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.
sim120504 runs
infromation processing neurophysiology biology
#71

Photosynthesis Model

sim1394611 runs
#72

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.
sim78764 runs
metabolism respriation ATP biology
#73

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.
sim9431 runs
asynchrony timing phenology climate change butterfly
#74

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.
sim109496 runs
transformation DNA biology
#75

Beta Cell Simulation - Split story

sim40274 runs
#76

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?
sim247872 runs
Genetics
#77

Guppy Evolution

sim121944 runs
evolution biology genes
#78

TSH-TH Feedback

model152 downloads
Download Model
Biology
#79

Primary Candidate Election Model

model210 downloads
Download Model
Education
#80

Signal Transduction Example

model149 downloads
Download Model
Biology Science
#81

Pop Growth v3

model164 downloads
Download Model
#82

Limiting Nutrients Model

model299 downloads
Download Model
Environment Ecology Education
#83

CR and ATP coupled reaction

model146 downloads
Download Model
Biology
#84

p53 and Cell Cycle

model211 downloads
Download Model
Biology
#85

Mechanical Energy Model

model47 downloads
Download Model
Science Physics Acceleration Velocity Potential Energy
#86

SIR Model for COVID-19

This model was copied from Jon Darkow: This model was copied from Jon Darkow:
model149 downloads
Download Model
Environment Biology Education
#87

Chapter 2.12

model376 downloads
Download Model
#88

Logistic Growth Model

model625 downloads
Download Model
#89

Two Variations - Population Growth

model147 downloads
Download Model
Biology Science Ecology Education
#90

Cardiac Myocytes

model280 downloads
Download Model
Biology Education
#91

Cellular Respiration Matter

model203 downloads
Download Model
#92

SIR Model for Coronavirus (COVID-19)

model1222 downloads
Download Model
Environment Biology Education
#93

Comparing COVID-19 with xxx

This model was copied from Jon Darkow:
model246 downloads
Download Model
Environment Biology Education
#94

Stock and Flow Teaching

model151 downloads
Download Model
Education
#95

OT Feedback

model171 downloads
Download Model
Biology
#96

Epinephrine Signal Transduction

model530 downloads
Download Model
Biology Science Education
#97

Hormone Sample 1

model192 downloads
Download Model
#98

insulin secretion

model153 downloads
Download Model
Biology
#99

Chapter 2: Population Growth

Chapter 2 introduction
model483 downloads
Download Model
#100

Exponential Growth in Population - AF

Chapter 2: Modeling the Environment
model558 downloads
Download Model
#101

Natural Selection Model v1

model236 downloads
Download Model
Biology
#102

Modeling Constant Acceleration

model44 downloads
Download Model
Science Education Physics Acceleration Velocity
#103

TH v2

model135 downloads
Download Model
Biology
#104

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.
model179 downloads
Download Model
Biology Science Education natural selection evolution
#105

TH v3

model128 downloads
Download Model
Biology
#106

Pop Growth with Resources v2

model132 downloads
Download Model
#107

Pop Growth v2

model107 downloads
Download Model
#108

Cellular Respriation: ID process flows

model159 downloads
Download Model
#109

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

This model was copied from Jon Darkow:
model481 downloads
Download Model
Environment Biology Education
#110

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.
model222 downloads
Download Model
Biology Physiology Feedback
#111

CLD Example

diagram201 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™.