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Backyard Brains Now Offering Privacy Mode on Brain Recordings

As part of our operations, we give talks to the public on weekly basis. We begin with neural signals from the legs of cockroaches, display of which carries low risk as the legs can grow back and cockroach leg neural signals are not covered under United States Privacy laws.

But, as we have been expanding our electrophysiology offerings to our fellow humans of this Earth, we find ourselves travelling into the internal you. We first started with muscle recordings, typically from your arms. We then went further into the body, now regularly showing the electrical signals of the hearts of the audience.

But as we entered the final domain and began demonstrating the electrical waves of the cerebral cortex, we began to feel a slight discomfort.

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We realized Pablo’s brain is exposed to all the world. Furthermore, once shared on social media, his brain waves are no longer his property. This must be stopped. Given the rash of recent hacks on sensitive websites, Backyard Brains is preemptively offering a “Brain Privacy Mode” on its Spike Recorder software

Your brain is now safe. You now have the discretion to reveal your cerebral cortex only to those intimate to you.

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Backyard Brains 2016 Summer Internship!

Call for Undergraduates in biology or engineering fields

Do you have an interest in neuroscience? Electrical, Mechanical or Computer engineering? Want to develop your own experiments and publish your results?  Learn to communicate with the public?  Maybe even all of the above?  Then you’re in luck!

All Interns 2015

The Backyard Brains Summer Internship is an intensive 10 week program for undergraduates to participate in hands-on neuroscience research and experiment design with award winning neuroscientists. This is the 3rd year of running our prestigious (and paid) summer program and this year it will run from May 23, 2016 to Aug 5, 2016 in Downtown Ann Arbor, MI.   All applications must be received by 12:00pm ET on March 12 to be eligible. We will be notifying applicants status by March 21, 2016.

Apply to the Summer Internship Today!

Interns at work 2015

All participants will be working on independent research projects, much like in a graduate school laboratory. We will have journal clubs to go over key papers, and you will be trained how to develop your own experiments and to build your own devices to perform those experiments.  You will be collecting data, analyzing and presenting your results.

Intern presenting 2015

The end result of your summer internship will be a publishable experiment and video for our website, as well as a poster to be delivered at Undergraduate Research Poster Session of the Society for Neuroscience. In 2015, two of our students won awards for their poster presentations!  We will work with each student to prepare a 10 minute TED-style talk for a public event in Ann Arbor, with the possibility of presenting at our annual TEDx event. We have also worked with students to continue refining their experiment writeups into manuscripts to publish first-authored papers in peer-reviewed journals.We have also worked with students to continue refining their manuscripts into first-authored peer-reviewed publications.

Apply to the Summer Internship Today!

Media Coverage of past Intern Projects

As interns, you will receive media coverage by the popular press.  See below for previous examples:

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Optogenetics Featured In Hackaday

“Cort Thompson is working with fruit flies genetically modified so a neuron will activate when they’re exposed to a specific pulse of light. It’s called optogenetics, and [Cort] has a few of these guys who have an ‘I’m tasting something sweet’ neuron activated when exposed to a pulse of red light”. Read the full article here
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RoboScorpion Featured in Popular Mechanics

“Backyard Brains, a small Michigan-based company dedicated to spreading the word about neuroscience, has been running surgical experiments on these deadly arachnids for the past two months, using electrical current to induce them to strike. Dylan Miller, a summer intern working the project, insists it’s the first time that an electrical current has ever been used to remotely induce a scorpion to strike with its pedipalps (claws) and tail”. Read the full article here.

Your Mentors

This summer you will be trained by Ph.D. Neuroscientists, inventors, makers, seasoned engineers, and public speakers.  With our team each intern will have a compelling demonstration that the public will be interested and delighted to see.  For example, see our recent TED talk on some our recent work.  Yours could be next!

Listen to a testimony from a former intern:

It was fun and challenging, but extremely rewarding. Greg was a great mentor and I learned so much. More than any other experience I’ve had, this internship prepared me for graduate school and a career in research“-D. Miller, 2014 Intern

Make Discoveries!

This year’s projects will be our most interesting and exciting ones yet.

Human EEG Alarm Clock-EEG/EMG Recording of Sleep vs. Awake: What’s the perfect amount of sleep to get? And how do you figure that out on your own-you can’t predict the exact moment you’ll fall asleep. It turns out that right as this happens, your body’s muscles relax, then the different stages of sleep are easily detectable with an EEG. Combined with the latest research on sleep, we can determine exactly when someone goes to sleep, what stage of sleep they’re in, and then produce an alarm at the optimal time, biologically, for them to awaken.

Killer Dragonfly neural recording: Dragonflies-the perfect flying predators, living up to their namesake! Dragonfly eyes are incredibly complex and achieve near all-around vision, as well as extremely accurate in determining the position and velocity of a flying target. Neurons in their eyes are directly connected to their flight muscles (rather than going through their brain first), so they can change their flight path or speed near instantly. Your project will be to carefully map the dragonflies descending flight neurons by recording while playing videos of prey moving.

South American Electric Fish communicator: Weakly electric fish can both put out and sense electrical signals, and this is a key part of how they navigate their world-the signal they put out “reflects” off of things, working like a sonar. If another fish with a similar signal is too close, however, they risk “jamming” each other, effectively blinding them, so we want to investigate what kind of signals the fish avoids as indication of either another fish or a large object in their path and induce this behavior experimentally.

Jump! The Grasshopper vision project: Have you ever tried to catch a grasshopper or cricket by hand? Difficult stuff! It turns out they’re highly responsive to certain visual cues to indicate an oncoming object’s speed and direction. Their tiny brains have evolved a way to do complex math. With video on an iPad and a SpikerBox, you will tease apart this behavior experimentally, recording the neurons going from their eyes right to their legs.

The Floating African Electric Fish Finder: Rivers in Africa are teeming with fish constantly outputting all sorts of electric signals, and these signals can be used to identify the species, each having its own unique signal. With an easily used and portable device, even new species of electric fish may be discovered by the researchers in the area unable to acquire the expensive, complicated, and heavy equipment usually required.

The Unstoppable RoboRoach: Our current RoboRoach (the world’s first commercially available cyborg) works by activating sensory neurons in the cockroach antenna. But peripheral neurons adapt quickly. What if we dove deeper? Recent research has plugged cockroaches directly into The Matrix and controlling their movement at the level of the central complex of the brain, allowing possible longer control of movement and reducing their adaptation to the stimulus. Your job will be to get this working with our RoboRoach

The Werner Herzog CameraRoach: A camera enabled cyborg cockroach for making movies. In a recent interview,(http://techcrunch.com/2016/01/22/werner-herzog-on-his-documentary-lo-and-behold-cockroach-movies-and-moving-to-mars/) notable filmmaker Werner Herzog mentioned the idea of shooting films with a camera attached to a cockroach. That’s inspired us to make this into a reality-a RoboRoach that can be controlled and can shoot film (or at the least, take pictures.) Together, we can make a cockroach’s dream of winning an Oscar into reality!

The DIY Neuron: The quest for the first “true” spike of Backyard Brains. Don’t let that confuse you-we’ve recorded spikes before, but our quest now is to BYB-ize (accessible, inexpensive, and exciting) intracellularly recording action potentials. To do this, we’ll take Oocytes (the single cells frog eggs come from) which are visible to the naked eye, and genetically modify them to express neuronal ion channels and fire spontaneous action potentials. Peer inside this neuron-like cell, and see how to effect the spikes with ion changes.

Neuroscience of Free Will with EEG: Since the 80’s this has been both a subject of social sciences and Cold War science fiction. During this decade Benjamin Libet, a physiology researcher, investigated how the premotor potential corresponded to the felt intention to move. Libet found that motor activity in the brain precedes, by approximately half a second, our awareness of the intention to move. Isn’t that freaky? That’s why we want to replicate this with our own EEG equipment

Become a BYB Intern in 2016, and help start the neuro-revolution!

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Apply to the Summer Internship Today!

FAQ’s

After receiving several emails and phone calls, we wanted to clarify a few points below:

Where does the internship take place?

You will be located at the Backyard Brains headquarters in downtown Ann Arbor (map). You will also be working out of our MakerSpace lab called “All Hands Active”.

How much are the interns paid?

The weekly payment is $404/wk. (Obama’s $10.10/hr)

How much is housing and can you help us find it?

While we do not pay for your housing, we are happy to inform you that summer housing is notoriously easy to find in Ann Arbor, as students leave for the summer and make available sublets. The price varies, but you can find sublet housing on craigslist for under $400. We recommend that you stay close to downtown/central campus.

I am not out of class until June. Can I start a bit later?

We feel that our interns need a full 10w to make significant progress on their projects. If you have a compelling reason on how this will not affect your project, we are willing to evaluate it on a case by case basis.

I am not an undergrad, can I still apply?

While our program is designed for undergraduates… If you are a college graduate, or a super smart High Schooler, we will accept your application.

Are projects assigned to interns or do the interns get some autonomy in deciding the course of their research?

The summer projects are described above and in the internship application. Each student will submit the project that they are interested during this process, or can suggest their own ideas. We take the applicant’s preferences in mind, and we pair a student with a project early on so that the intern will have some time to do some background reading and familiarize themselves with the organism/methods. While we have some idea of the direction or end result of a project, we encourage independent thought throughout the process-some of our most successful projects have come from slight deviations from the original goals. We will send out some suggested papers a few weeks before the program starts.


The Roach Race-Cockroaches on Wheels to study Circadian Rhythms!

Welcome to the cockroach world!

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My work for these five weeks was to develop a novel low-cost system to study the circadian rhythm of cockroaches. I’m working with my beautiful friends discoid cockroaches (B. discoidalis).

 

 

Circadian rhythms are physical, mental, and behavioral changes that follow a roughly 24-hour cycle, responding primarily to light and darkness in an organism’s environment. In the case of these nocturnal creatures the changes in locomotor activity (what I’m measuring) goes from sleeping during daylight, and activity during night. The sleep-wake cycle is generated by an internal clock that is synchronized to the light-dark cycle of the environment.  Because they are nocturnal, light may directly inhibit locomotor activity.

We asked what would happen to the activity patterns of discoid roaches if they kept a normal 12 hour light/dark cycle for ten days and then switched to 24 hours of darkness for another ten days, and then with constant light. In the absence of external cues to tell the cockroach what time of day it is, our hypothesis is that we will see free-running, and a new activity cycle will develop based solely on the internal biological clock. To track this, we measure the activity of the cockroach with running-wheels throughout the day in free-running conditions (no external cues), along with sensors to track light and temperature.  From this we hope to develop the cockroach wheel as a model for educating students about circadian rhythms, animal behavior, and neuroscience, and to provide a simple, low-cost, but flexible experimental system for research into the behavioral effects of various commonly consumed substances such as caffeine.

The rhythm in cockroaches is controlled by the sub-oesophageal ganglion. The photoreceptors on eyes detects light or darkness, transduce the signal, this signal goes through the optical nerve to the optic lobe (where is located the clock), this one receives the message and output the activity. I will control the external cue (light) that her brain used to output the activity that corresponds to the time.

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Want to study with cockroaches?

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When I came here 5 weeks ago I began with a microcontroller (BeagleBone Black), the green board with sensors, a wheel with some black,
and white stripes, a devilish code to run all of this,  and knowing nothing about anything of the electrical and computer science work that I was needed to do.

As soon as possible I put everything to work. My older set-up looks like the photo at the right-it was in Karina3a box that I carried to my house several times in order to record data. I need them this way because the BeagleBone wasn’t, at the time programmed to access Internet through an ethernet Karina4cable, so I needed it, at all times, connected to my computer and my laptop turned on. The most difficult objective to complete was to have the code with all the commands in the correct way so it can collect good data. There seemed to always be a problem with missing, commented, uncommented, or extra lines that made this code a stressful thing to work with.

I now have five 3D printed running-wheels with plenty space for the cockroach and a good object sensor at the back, the light sensor to tell when the lights go on and off, and temperature sensors that showed the environment was constant.  I attached these to the support of the wheel, all in a comfortable locker with soundproofing foam (to eliminate outside noise), and a device that control when the lights goes on and off. The board with these sensors is attached to the BeagleBone Black, and the BBB runs through Wi-Fi (no easy feat). Though not done yet, my code is getting better with the help of people like Stanislav our programmer, and Max and Nick-our resident super-engineers. Now the system is complete and beautiful:

Karina8Karina7Research in Progress

Outlet Timer                                              Wi-Fi adapter                                        Research in Progress

 

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Sensors at the back                  Object sensor with B/W Stripes   Microcontroller with breadboard (red)

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The Fantastic Five

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Let there be (12 hour cycle) light!                      Cockroach Rave

Want to see cool cockroaches running on the wheel? Click here:

https://www.youtube.com/watch?v=jEmhrpX7Ntc

https://www.youtube.com/watch?v=SqUIjPRfMgk

The fastest one? Click here: https://www.youtube.com/watch?v=vdbTq0RI9MI

Environment for cockroaches

I put my cockroaches in a controlled environment with no karina15external cues interfering, such as noise or light during night, that could let them know what time of day it is. We don’t want them to potentially associate other external cues to time because their rhythm will be based on other cues, and not on light cues which we control and provide.  In order to achieve this I put them in a locker with soundproofing foam, a stripe of LED lights (sun light), and the green board that contains the sensors attached to the 3D printed running-wheel for a sexy and clean set-up.

 

 

Understanding the collected data

Now that we have all the set-up, let’s move to the best part-Science! In my data I have a range of arbitrary values that will represent whether the sensor received lots of infrared light back or not. That usually goes from 2500 to 4000-A value of 2500 means that the sensor was in front of a white stripe, and if in front of black stripe the value can go up to 4000. Every time the cockroach moves, the stripes do too, and so I can see in my data the movements in a wave that goes from white (2500) to black (4000).karina16

 

 

 

 

 

 

 

How object sensor works

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Set-up to collect data

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First ever collection of complete 23.3 hours of data!

Cockroaches are nocturnal animals, that’s why light may directly inhibit locomotor activity in a them.  I’m looking for a pattern of activity-once I have that, I will begin with the dark/dark cycle, and compare this data to the normal cycle they exhibit.

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Actograms!

You’re seeing two circadian rhythms of two different cockroaches in the same environment. As you see, It showed a rhythmicity, although does not follow the light cycle. This may have been because the cockroaches were living in a dark room. A couple of weeks are needed for them to adjust to the light cycle.This is the most astounding data I ever saw. This is the first time data is collected and plotted in an actogram. Hope you enjoyed like I do.

Why study circadian rhythms

My main goal for this project is to prove the system is viable to study the circadian rhythms of cockroaches, and I did it. Research in this area can lead to knowledge about how the daily cycle in humans works, and what are the consequences of disruptions to it. It is known that disruptions to the circadian rhythms are highly related to cancer, obesity, mood disorders, stress, and other health issues.

You made it! Thanks for taking the time to read how it is going with my research.

 

Behind this project isKarina22

The Alpha Dog, also called Karina M. Matos Fernández. I study Psychology and Mental Health in the University of Puerto Rico in Ponce, and I’m a proudly intern in Backyard Brains. For this project I’m using papers such as Control of the circadian rhythm of activity in the cockroach by John Brady, along with Recording and Analysis of Circadian Rhythms in Running-wheel Activity in Rodents by Verwey, Robinson, and Amir.

I’ve never known anything about what a microcontroller is or could do, and this month I programed six of the most finicky kind-BeagleBones. That’s why I’m called The Alpha Dog. Also it never crossed my mind that I would be so close to a cockroach… And yet, now I love them. How could one not love these amazing creatures?

If you are wondering how I beat my fear of cockroaches, let me tell you that I’m still working on that. In case no one was available to grab them, I used a special mechanism I invented consisting of a cup and a lid: these two helped me to grab them. However, I still feel a special love for them.

I’ll be glad to know who you are, and what are your questions and comments. I hope that now you’re interested in making research with cool model systems such as this one. Whoever is out there, I want to know more about you. Keep in touch to know more about the progress of the project.

Contact: karina@backyardbrains.com

To be continued…

 

Katelyn Rowley put some scientific

photos in my post. Thanks!