Friday, March 27, 2015

Immune Defense: Inflammatory Language Guest Post

Melanie Stegman, Ph.D., Creative Director of Immune Defense (a novel video game) and Owner of Molecular Jig Games is the winner of this year's Inflammatory Language Contest. In her words...

The game is meant to be an introduction, a tool to spark interest and provide basic vocabulary so that players can follow up on Wikipedia or PubMedCentral, or also, so that a teacher could design a lesson based on the game as an introduction. 

To play the game people can do it two ways:  

1. Play on the web.  This requires a browser and the Unity Plugin for the browser, then a link to the html. 
Link to the Plugin :
http://www.Unity3d.com/webplayer
Link to the game:
 https://s3.amazonaws.com/immunedefense-web-builds/new+folder/Mar12/IDWebBuild031215Stream.html 

2.  Download and play on your Mac, PC or Linux.  (no tablet version yet).
https://www.dropbox.com/sh/it83n3y9kinzeja/AABHqbZ8C6XSBkfLI8uK-mRxa?dl=0

Some browsers will assume any download from dropbox is suspicious.  It is not, Immune Defense has been downloaded and installed countless times, there are no viruses.

Video games make players interested in accomplishing a goal.  Players expect to be given tools to accomplish the goals.  Players also expect to be able to try the tools and see what happens.  The game needs a limit, an end, a loose state for each level. In Immune Defense, the accumulation of too much inflammation damage is the end. This means the player will consider each of their actions in light of whether or not the action will increase or decrease the rate of inflammation damage. Players will learn that inflammation is caused by many sources, has a wide variety of effects, is useful for killing pathogens, and also causes collateral damage.    

Immune Defense is an interface that can introduce non-scientists to the molecular aspect of cell biology.  Once we have introduced these basic concepts  about inflammation, we can introduce more detail using the familiar interface.  Adding more detail is the same as making more levels of game play.  The very most unique thing about Immune Defense is that we are able to use the actual molecular mechanisms of inflammation in the explanation for what it is.  We are able to use molecular level explanations because Immune Defense is an interface that lets player see and manipulate molecules and cells.  The time we spent creating this interface, choosing which details to show, which details to allow the player to manipulate, which details to require them to master… this design allows us to drive interest to molecular biology in an unprecedented way.


The player pilots a 25-micrometer Microbot inside the body. The Microbot gives the player advice about which cells to buy and how to use them.  The Microbot uses “energy” to call up white blood cells. 

Players can change the receptors on their cells. Adding a “MOVE” receptor, allows cell to respond to certain cytokines. In this case, purple rectangles represent Complement Factor C3a and following them will bring a cell closer to the bacteria.  



With JOB receptors, cells can perform various functions, and the function of an “Eater Cell” like Macrophages, is to eat.  Phagocytes have several receptors for binding to pathogens. Here, we are using the “LPS Receptor” (TLR4). E coli bacteria are bound to the receptor and are being “eaten” one at a time.

After the four steps of killing a pathogen are clear to the player, we introduce pathogens than can evade the four steps.  Each pathogen is a puzzle to be figured out.  This increasing level of complexity draws the player in.  By balancing the engagement of the game play, the clarity of the molecular and cellular events and the amount of information presented to the player, we are able to teach very complex and abstract concepts.  For instance, we balance the level of information presented by only showing the parts of the cell that the player needs to see to understand and manipulate the 4 basic steps of pathogen killing.  


Tracking, binding, containing, dissolving are the steps to killing a pathogen. Interior of cells contains just the organelles required to demonstrate all the steps required to kill a pathogen. See the green E. coli bacteria inside the round endosome, which is moving toward the kidney bean shaped phagosome.


Screenshot 2015-03-15 13.28.09.png

There are visual signals to indicate to the player that each step is taking place.  To indicate dissolving, red dots appear in the phagosome.  The red dots, therefore, become associated with killing pathogens.  These dots are the indication to the player that the final stage of killing a pathogen is occurring as expected.  



We teach players how to use Macrophage cells to activate Neutrophil cells, and then explain to players that activation both kills pathogens faster and also increases the inflammation rate.  
Neutrophils are cheaper, and they can be activated by the TNF That Macrophages are making. Activated Neutrophils can eat many bacteria at a time, instead of one at a time.
Player must put the TNF receptor on the Neutrophil and drag a TNF to the receptor or wait for random diffusion to bring TNF to its receptor, as shown in the GIF below.  (if you cannot see this GIF, please find it here:


Small-Activated-Awesome.gif


Screenshot 2015-03-15 13.28.40.png



Once a Neutrophil is activated, the red dots are seen floating out of the Neutrophil, and the “inflammation rate” is increased.  This is the indication to the player that the Neutrophil is not only killing the pathogen, but that it is also causing general damage to the area.  


Additionally, Neutrophils accumulate red dots in their cytosol, which indicates damage to themselves, and after dissolving 13 pathogens, the Neutrophil become apoptotic.

The bacteria have all been eaten, so there is no more C3a, and the inflammation rate has gone down a bit.  After the battle: one Neutrophil (top left) has become apoptotic and the Macrophage is about to eat it, which will lower the inflammation rate.



Screenshot 2015-03-15 13.30.17.png

In the game now, the total damage caused by inflammation is indicated by the red bar at the top of the screen.  When the red bar is all the way filled up, the level is over because too much damage has occurred.  



Screenshot 2015-03-15 13.28.54.png
Here the total inflammation damage has reached 80% of max allowed damage, and the screen in blinking red to indicate the critical condition.  The player can still recover, by eliminating pathogens, which reduces the C3a. Additionally, Neutrophils in our game die after eating 13 pathogens.  In later levels the player will be given molecules to let them lower the inflammation rate more quickly, such as molecules that inactivate their cells, cause apoptosis, or promote healing of the tissues.


In summary, players need to use white blood cells and their powerful phagosomes to dissolve all the pathogens.  Players need to use cytokines, which themselves increase the inflammation rate to reach the pathogens.  Players realize that some pathogens have virulence factors that make them more difficult to kill, and that activation of cells helps them overcome the pathogen while also causing more inflammation damage.

Immune Defense was imagined and developed by Melanie Stegman and many others, who are listed at www.MolecularJig.com/Immune-Defense-Game.  


Immune Defense has a trailer!



Thursday, March 26, 2015

Winner of 3rd Annual Inflammatory Language Contest!

The Febrile Muse has chosen Immune Defense, a novel molecular game by Melanie Stegman, Ph.D., Creative Director of Immune Defense and Owner of Molecular Jig Games.  

Many people were involved in the creation of this game. For more details, go to Immune Defense Game. In addition, congratulations to the creators on their successful IndieGoGo project,  to develop it further!

There will soon be a follow-up post by Dr. Stegman that includes game details and screen shots (and links to play it!!!). Here is the Immune Defense trailer:


As promised, Dr. Stegman will receive a PBS review copy of American Experience: The Forgotten Plague. The Deadly Story of Tuberculosis in America, and the Hunt for a Cure as her prize. Congratulations!

AND....A Huge thank you to everyone that submitted material. 

Wednesday, February 11, 2015

Third Annual Contest for Inflammatory Language

Inflammatory Language is a series of primers on inflammation science. Care to contribute? There is a free preview copy of the following for the one winning submission:

Preview Copy of
The Forgotten Plague
American Experience 2/10/15
Photo by CM Doran 2015

American Experience: 
The Forgotten Plague
The Deadly Story of Tuberculosis in America 
and the Hunt for a Cure
Premiered 2/10/15

The 2013 winner was Dr. Monica Lalanda of Medicoacuadros. Her illustrations were included in Inflammatory Language: The Rain in Spain.... She received a signed copy of The Best Science Writing Online 2012.

This contest is a great opportunity for students, but anyone can contribute. The 2014 contest did not have a winner; there were no acceptable submissions.

So, for 2015, carefully select 300-500 words (or less) and/or an illustration that conveys inflammation. It can be humorous, political, or encompass pop culture or current events, but must be professional. It also needs to be appropriate for viewing/reading by most people.

The overall goal is to accurately inform readers.

Submissions can be sent to thefebrilemuse[at]gmail[dot]com. Please include "Inflammatory Language 2015 contest" in subject line, your professional byline, and your website URL, if you have one. Thank you in advance, and good luck! I look forward to reading your submissions.

Deadline:  by end of Sunday, March 15, 2015

Monday, February 9, 2015

Tuberculosis: Review of The Forgotten Plague by American Experience (PBS)

Now it is the forgotten plague, but in the 1800's through the early 20th century, tuberculosis (TB) was not out-of-mind. It affected everyone; nearly 1 in 170 people were in a sanitarium. Nearly every family, rich or poor, lost family members to TB. 

Highlighting how the U.S. was affected by TB, American Experience has produced yet another thought-provoking documentary:

American Experience: 
The Forgotten Plague
The Deadly Story of Tuberculosis in America 
and the Hunt for a Cure
Premieres Tues, February 10th from 9-10PM ET on PBS

Scores of Americans, rich and poor, became health-seekers. They migrated west and south, to Los Angeles, Pasadena, Tucson, Denver, and many other now large cities, in search of fresh air and health.

The film is partly based on Living in the Shadow of Death by Sheila Rothman, but also has contribution by authors Andrea Barrett (The Air We Breathe) and Peter Pringle (Experiment Eleven: Dark Secrets Behind the Discovery of a Wonder Drug). Also, in true American Experience form, there are interviews of people affected by TB, namely former patients of Trudeau's Sanitarium (Dr. Edward Trudeau was developer of the first sanitarium in the U.S.).

Dr. Trudeau was himself a patient, and an ardent believer of Robert Koch's 1882 postulates and felt TB to be contagious, especially after he detected the TB bacillus in his own throat swabs. The medical establishment was slow to adapt, and it took decades before major public health measures were taken. 

Public health measures helped with hygiene (think Kleenex, hemlines, beards, parks and playgrounds, and porches), but also led to stigma of the poor, namely immigrants and African Americans. Many people were sent to segregated sanitariums which helped many improve, for a while, but even in Dr. Trudeau's Sanitarium, only 1/3 of his patients (before medications became available) lived. His daughter and himself, as well, succumbed to the disease.

In 1943, Dr. Albert Schatz, working in Selman Waksman's laboratory, developed streptomycin, the first medication to treat TB. Within months, many patients relapsed, underscoring the need for multiple medications to treat this bacillus.

In the 1950's TB became treatable and sanitariums started closing. Today, we have an increase in multi-drug resistant TB. Let's not forget our history. 

Thursday, November 20, 2014

Robert Hooke's Microscope


Robert Hooke's Microscope at the
National Museum of Health and Medicine
photo by CM Doran 2013
Imagine the world explored when Robert Hooke looked into this beautiful microscope.

The card reads:
Microscope, Christopher Cock (London), 1665
This microscope was used by Robert Hooke of the Royal Society, author of Micrographia and first person to apply the cord 'cell' to microscopic structures.
M-030.00276

Monday, November 10, 2014

Reversion: Unintended Consequences

Today, Reversion by Amy Rogers at Science Thrillers is released:  a lab worker on an illicit drug mission, hiding in a cave with bats; a clinical trial of gene therapy at a foreign medical tourism destination (because it was not approved in the States); and assorted characters ranging from sweet and valiant to pure sociopathic. What could possibly go wrong?

The science of rabies, gene therapy, and mutations (to only name a few topics) are well portrayed:
"Disabling the virus was standard procedure when using a virus as a tool in gene therapy. Yes, her clinical trial used a rabies virus, but the virus was designed to be nothing more than a courier that delivered a package of DNA to a specific cellular address. It didn't behave like natural rabies, and it definitely did not make the patient sick. She'd taken great pains to guarantee the safety of her genetically-engineered virus. She had deleted the genes that allowed it to cause disease, and she had crippled the virus's reproduction. Outside the laboratory, it could not copy itself. Which was the reason Gunnar needed to be treated on a regular basis. The gene therapy virus died off, was cleared from his body, and had to be replaced over and over."
Contained within Reversion are Negri bodies and Batten's diseaseat odds with each other. A happy coincidence for the reviewer is that they were discovered in the same year, 1903. This coincidence is not a part of the story, but the lab bench "aha" moment (you will have to read the book to find out what that is) makes this coincidence sublime.

Reversion illustrates multiple ethical dilemmas such as the loss of subjectivity in clinical trials, for-profit medicine, and primate research. In addition, experiments inherently have some error. What effect does the power of nature have on error? 

The power of nature is a great theme, and was also portrayed in Dr. Roger's first well-done book, Petroplague. But Reversion is a more mature read, in content, and in story construction. 

The cover of Reversion shows Mayan glyphs, bats, and virus particles. The drug cartel certainly provides a Mayan underworld tone to the story (this reviewer will not be able to look at an MRI machine the same). But, also setting the tone is Lyssa, Greek Goddess of madness, rage, frenzy, and rabid animals; and there is allusion to King Midasa gift with consequences. The mythological stories are undercurrent, not central to the story. 

Reversion has Sameer, Vargas, and Lyle. They are the most strong characters who seemed either the most sincere, pathetic, or mysterious. The main protagonist, Dr. Tessa Price,  was well-defined, with a misguided sense of duty and an unreasonable fear of needles (read to find out where that gets her). She grows, but maybe not enough to end her story, or Gunnar's story.

Reversion is undeniably a satisfying read, and truly deserves a large audience. It is published by the new Science Thrillers Media, which now has four titles, and is also an invention of Dr. Amy Rogers. Readers have a lot to look forward to with her works.

Saturday, August 2, 2014

Glimpse of Smallpox

Smallpox.
Extinction brought to you by all the hard efforts of research and vaccination.
CM Doran 2013: Preserved foot of smallpox victim at
National Museum of Health and Medicine;
Silver Spring, Maryland

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