Author: marinscienceseminar

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All About Lysosomes

by Angel Zhou, Branson School


Lysosomes, discovered and named by Belgian biologist Christian de Duve, who eventually received the Nobel Prize in Medicine in 1974, are membrane-enclosed organelles that function as the digestive system of the cell, both degrading material taken up from outside the cell and digesting obsolete components of the cell itself. The membrane around a lysosome allows the digestive enzymes to work at the pH they require. In their simplest form, lysosomes are visualized as dense spherical vacuoles, but they can display considerable variation in size and shape as a result of differences in the materials that have been taken up for digestion. Lysosomes contain an array of enzymes capable of breaking down biological polymers, including proteins, nucleic acids, carbohydrates, and lipids.


The lysosome’s enzymes are synthesized in the rough endoplasmic reticulum. The enzymes are released from Golgi apparatus in small vesicles which ultimately fuse with acidic vesicles called endosomes, thus becoming full lysosomes. Lysosomes are interlinked with three intracellular processes, namely phagocytosis, endocytosis and autophagy. Extracellular materials such as microorganisms taken up by phagocytosis, macromolecules by endocytosis, and unwanted cell organelles are fused with lysosomes in which they are broken down to their basic molecules.
Synthesis of lysosomal enzymes is controlled by nuclear genes. Mutations in the genes for these enzymes are responsible for more than 30 different human genetic diseases, which are collectively known as lysosomal storage diseases (LSD). The group of genetically inherited disorders are a type of inborn errors of metabolism caused by malfunction of one of the enzymes. The rate of incidence is estimated to be 1 in 5,000 live births. The primary cause is deficiency of an acidic hydrolase, a hydrolase which functions best in acidic environments. The initial effect of such disorders is accumulation of specific macromolecules or monomeric compounds, affecting the brain, viscera, bone and cartilage the most drastically.

To learn more about how lysosomes can communicate with the rest of the cell to act as recycling centers of cellular waste material in good times and about how lysosomes can act as overly-filled, toxic trash cans in bad times, contributing to cell death and the onset of disease, join us this Wednesday, April 7th for this week’s Marin Science Seminar “Let’s Learn About Lysosomes“ with Gouri Yogalingam, Ph.D. of the BioMarin in Room 207 at Terra Linda High School in San Rafael. 


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Interview with Dr. Katie Ferris of UC Berkeley

by Angel Zhou, Branson School

Monkey Flower 

Monkey flowers and mice – two radically different things. Yet, biologists, like Dr. Katie Ferris, are studying how native monkey flowers and mice have adapted to drastically different environments. 
Dr. Ferris currently works with Dr. Michael Nachman at UC Berkeley, using genetic sequencing and samples of monkey flowers and mice to show how organisms are often adapted to their local environment and that these adaptations are genetically based. 
To learn more about Dr. Ferris and her work with Monkey flowers and mice, read the following interview:
1) How did you decide to enter your field of work?
I decided to become a biologist pretty early on in life. When I was little I loved being outside and interacting with the natural world, especially with plants. Because of my attraction to plants I often got in trouble for picking flowers in my mother’s garden. When I was three years old I picked off every single bright green new hosta lily shoot that popped out of the earth. My mother was furious that I had laid waste to her hostas. After she calmed down a little she told me that when I grew up I should be a botanist because then I could pick any plant that I wanted without getting in trouble. The notion stuck and I pursued biology throughout high school and into college. In college I got a job in a lab that studied plant evolutionary genetics and learned a lot of new and exciting things through doing my own research. That experience is how I became interested in my current field of the genetics of adaptation in wild organisms.
2) Describe your typical day at work as a geneticist. What are the best parts of your job? What are the worst parts?
My typical day at work involves several different kinds of activities, which is something I like. Typically I will attend a scientific talk on something related to my interests, do hands-on work with mice (or monkey flowers in my former job), spend an hour or two doing molecular biology in a wet lab and of course spend a little time working on my computer analyzing data or reading scientific papers. The work with animals and in the wet lab usually involved working with undergraduate students who volunteer in the lab in order to participate in research. Some of the best parts of my job are getting to work with students and trying to spread my love of biology and scientific research. I also enjoy the precious and satisfaction of laboratory work and the personalities of the mice. The worst part of my job is when I have to spend a lot of time dissecting dead mice. I did not go into medicine for a reason 🙂
3) How did you decide to study monkey flowers and wild mice specifically? What conclusions have you drawn thus far in your research?
I decided to study monkey flowers when I was interviewing for graduate school. I visited a lot of different labs that studied plants, but the monkey flowers were by far the most captivating. They are bright yellow, happy little things and closely related species live in an incredible range of different environments from old copper mine tailings to salty coastal sand dunes. They are just really cool plants. I became interested in wild mice because of the work my post-doc advisor had done on the genetics of mouse coloration. He found the genetic changes that caused light colored desert mice to become dark when they lived on black rock outcrops. The mice that live on the dark rocks can then blend in to their surroundings and are less likely to be eaten by predators. I like making hypotheses more than drawing conclusions, but I would say that the main conclusion I have drawn from my research so far is that organisms are often adapted to their local environment and that these adaptations are genetically based. I have also concluded that biology is very complicated 
4) What is your ultimate goal in studying the genetics of adaption and speciation?
My ultimate goal in studying the genetics of adaptation and speciation is to understand better how the world around us works. I want to understand which genes are involved in important traits and if the same genes are used repeatedly to evolve the same traits in different organisms. In short, I want to know if the genetic basis of adaptation is predictable in any way. I also just generally want to contribute new knowledge to the scientific community. A better understanding of the genetic basis of ecologically important traits like drought tolerance or coat color can also be used by scientists in applied field to help improve agriculture or medicine. 

Dr. Katie Ferris, UC Berkley
To learn more about the genes and species’ adaptation to extreme environments, join us on Wednesday, April 1st for Dr. Katie Ferris’ seminar, “From Monkey Flowers to Wild Mice: A Tale of Genes, Adaptation and Extreme Environments” in Room 207 at Terra Linda High School in San Rafael. For more information, visit Marin Science Seminar’s Facebook page: https://www.facebook.com/events/850586588342167/
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Why Matter Matters for the Large Hadron Collider

by Talya Klinger, Homeschooler

After the discovery of the Higgs Boson in 2012, the Large Hadron Collider (LHC), near Geneva, Switzerland, shut down for upgrades so that it would be able to accommodate even higher-energy collisions.

Dr. Lauren Tompkins, a physicist and assistant professor at Stanford University who worked on the ATLAS experiment at the LHC, conducts research on subatomic particles and what they can tell us about matter in general. She spoke to Marin Science Seminar on March 25, 2015 about her work.  What’s next for the LHC when it comes back online in spring, 2015?

In Dr. Tompkins’s words: 

First things first: what made you decide to become a physicist?

I became a physicist for several reasons, but the earliest motivation for me was the fact that in all of my science classes, I kept asking the annoying question: “But, why?”  If you keep asking why in biology (“why do the cells organize that way?”), then you end up with chemistry, and if you do the same with chemistry (“why do the molecules have that structure?”), you end up with physics. Particle physics, in my opinion, is the ultimate way to ask that question through experimentation.

Can you share a bit about your experiences of working on the ATLAS experiment?

I started working on the ATLAS experiment as a post-bac student in 2004, and have been loving it ever since. It’s such a massive project that I’ve been able to work on everything from software to hardware, from analysis of the simplest possible proton interactions, to simulations of what crazy new physics models would look like to us. I was lucky enough as a graduate student to be at CERN, in the experiment control room, taking detector operation shifts during the first few months of high energy collisions. That was pretty special.  

Another aspect of working on ATLAS that I love is the fact that I have over 3000 collaborators from all over the world. I get to work collaboratively with a large fraction of the scientists in my field of research. If I were doing a different type of science, I would probably be competing against them. And, although I’m a pretty competitive person, I would much rather work together on a team and build something great than try to do everything myself.

Once the Large Hadron Collider is back in operation, what’s next? 

We’ll have two main objectives. First, we need to study the newly discovered Higgs boson in much greater detail. It’s the first new fundamental particle we’ve discovered since 1994, and its properties–specifically how it interacts with other particles–will be key to understanding the larger structure of matter. Secondly, we are going to be searching for evidence of physics beyond the Standard Model of particle physics (our theory of how particles interact). For example, from astronomy and cosmology, we know that dark matter exists, but we can’t find a place for it in the Standard Model. So we are going to be looking for it at the LHC and trying to figure out how it connects to normal matter–the stuff that you and I are made of. We are also going to be looking for evidence of extra dimensions, trying to find hypothesized super-partners of the standard model particles and searching for signs that perhaps there is something smaller than quarks.  

How does your research on subatomic particles relate to matter on a larger scale? In other words, how do you answer people’s questions about why your research on matter matters? 

That is always a tough question to answer because there are so many challenges in the world right now and sometimes it’s hard to draw the line from the LHC to solving those problems. But, I do firmly believe that striving to understand the natural world is such a fundamental part of humankind that we need, and are driven, to do research like the LHC. In fact, given its scale and the sheer number of people involved, the LHC is such a beautiful example of that drive. And, of course, in trying to push the boundaries of human knowledge, we produce technologies that make their way into the public sphere as well. Personally, I anchor my work on the LHC to expanding access to science and technology careers to people who have traditionally been excluded from it. There is no reason that these explorations should be reserved for the overwhelming white and male population who have traditionally been dominant.

Do you have any advice to share with high school students who are interested in studying particle physics?

Particle physics is wonderful because there is so much of it that you can understand by reading. So, read popular science books, like those by Lisa Randall and Sean Carrol.  And watch the film Particle Fever. It does an amazing job of capturing what it’s like.  Also, take as much math as possible and don’t be afraid of it!  Math is a lot of work, but it is the language of science–you need to be fluent in it!  And, just like you aren’t born “being good” at speaking or reading, you aren’t born “being good” at math. Math takes just as much hard work as learning to speak or read; we just learn it slower because we don’t use it as much.  

Finally, do you have a favorite subatomic particle? (I’m partial to the neutrino, myself.) 

I love all my particles equally! But, if I had to choose, I guess it would be the Z boson.  We’ve learned so much about the Standard Model by studying it, and it is pretty democratic in its decays. 

http://cms.web.cern.ch/news/first-z-bosons-detected-cms-heavy-ion-collisions

Figure 1: Candidate Z boson decaying to two electrons (two tallest red towers) in a lead-lead heavy ion collision at CMS. The other red and blue towers indicate energy deposits in CMS from other particles produced.


Figure 2: Candidate Z boson decaying to two muons (two red lines) in a lead-lead heavy ion collision at CMS. The green indicates energy deposits in CMS from other particles produced.

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The Magic of a New Large Hadron Collier

by Angel Zhou, Branson School

Large Hadron Collider,  Switzerland
This week, the Large Hadron Collider, or LHC, will restart after a two-year hiatus. The pause was intentional, giving technicians and engineers time to ramp up the collision energy intended to push the laws of physics to their limits. 
The LHC, completed in 2008 by the European Organization for Nuclear Research (CERN) at a cost of around $10 billion, is the world’s largest particle accelerator: an extremely long underground tunnel that allows physicists to conduct some pretty intense experiments. In essence, these experiment involve shooting beams of particles around the ring, using enormous magnets to speed them up to 99.9999 percent of the speed of light, then crashing them together. Sophisticated sensors capture all sorts of data on the particles that result from these collisions. In particle collisions, the higher the energy, the bigger the payoff, as the energy of the colliding particles gets translated into the masses of the debris, following the E=mc^2 prescription. As particles collide, their energy morphs into a shower of new particles that come flying off from the collision point.
The LHC’s biggest finding so far was the discovery of an elementary particle called the Higgs boson. Since the 1960s, the Higgs boson was thought to exist as a part of the Higgs field: an invisible field that permeates all space and exerts a drag on every particle. It had been calculated that after being formed during a collision, the Higgs boson would immediately decay into other particles in a specific ratio. Data collected after protons were crashed together showed evidence of these particles in the ratio predicted. In 2012, after three years of experiments at the LHC, physicists confirmed the Higgs boson does indeed exist. 

Higgs Boson
All the experiments conducted at the LHC so far are part of “run one.” After several years of upgrading the LHC’s magnets, which speed up and control the flow of particles, and data sensors, it’ll begin “run two”: a new series of experiments that will involve crashing particles together with nearly twice as much energy as before. These more powerful collisions will allow scientists to keep discovering new and perhaps larger particles, and also look more closely at the Higgs boson to observe how it behaves under different conditions.
To learn more about the what scientists hope to discover with the updated Large Hadron Collider, such as mini black holes, more higgs bosons, extra dimension, and perhaps, pink elephants, join us on Wednesday, March 25th for Dr. Lauren Tompkins’ seminar, “Extra dimensions, mini black holes and.. Pink Elephants?: Exciting times ahead at the Large Hadron Collider” in Room 207 at Terra Linda High School in San Rafael. For more information, visit Marin Science Seminar’s Facebook page: https://www.facebook.com/events/1426190077679597/
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Interview with Steve Croft, Ph. D. on Black Holes

By Angel Zhou, Branson School


Black holes. Don’t let the name fool you: a black hole is anything but empty space. Rather, it is a great amount of matter packed into a very small area. Scientists can’t directly observe black holes with telescopes that detect x-rays, light, or other forms of electromagnetic radiation. They can, however, infer the presence of black holes and study them by detecting their effect on other matter nearby.

Steve Croft, an astronomer at the University of California, Berkeley, uses a new radio telescope, the Allen Telescope Array to study. He grew up in England, where he received a PhD in astrophysics from Oxford University in 2002, before moving to California to work as a postdoctoral researcher at the Lawrence Livermore National Laboratory.

Read the following interview to learn more about Dr. Croft’s life and work as an astronomer.  


Steve Croft, Ph. D.

1) How did you decide to enter your field of work?
I’ve always been fascinated to understand how things work. We’re all born scientists and explorers at some level. Even as babies we learn about the world around us by trying things out, taking things apart, and performing experiments. I got particularly interested in space when a neighbor bought me a book about astronomy when I was probably about eight years old. My parents bought me a small telescope at about twelve that I used to look at craters on the Moon and the rings of Saturn. I continued to read astronomy books and watch astronomy TV shows, as well as being fortunate to learn math and science from some great school teachers.
I chose to study astrophysics for my undergraduate degree at University College London in the UK, and particularly enjoyed hands on experience with large telescopes at the University of London Observatory. That really confirmed for me that I wanted to be an observational astronomer, so I ended up doing a PhD at Oxford University, using some of the world’s largest telescopes to study the growth and environments of supermassive black holes. I moved to California in 2002 and worked at the Lawrence Livermore National Lab for 5 years where I was a member of a small astronomy research group. I got to use the Keck Telescopes in Hawaii – the largest optical telescopes in the world – as well as the Hubble Space Telescope and many others. I’ve been at Berkeley since 2007, and I’m currently working on one of the most cutting edge radio telescopes in the world as part of a big international team. 
2) Describe your typical day at work as an astronomer. What are your favorite and least favorite parts of your job?
I travel a lot for work. I just got back from a month in Australia. I spent most of the time there working with colleagues at the University of Sydney, but I also traveled to Melbourne for a couple of days to give talks, as well as out to the site of the telescope I’m working on, in the remote Australian outback. Last year I traveled to South Africa and Italy for conferences, as well as several trips within the US for meetings. The travel is one of my favorite parts of the job. Meeting new people and exploring new ideas, as well as seeing new places, are important to me.

When I am in the Bay Area I go into the office most days, although sometimes I work from home or have meetings offsite. I work in a regular office which I share with another astronomer. Most of my work is done using an iMac computer with two big screens, but I log in remotely to more powerful computers (including one with 256 GB of RAM and many TB of storage) to analyze the data from the telescopes I’m using. More often than not I’ll have a meeting or two, or attend a seminar. Sometimes I’ll have informal discussions with colleagues over lunch. I read papers written by other astronomers to keep up on research in my field. I also do a lot of education and outreach programs, including working with high schoolers. Last year we launched two high altitude weather balloons with GoPro cameras attached to the edge of space. That was really exciting.

I guess my least favorite part of the job is that I always have so much going on, including a ton of emails waiting for me to respond to. It’s great to be in a job that’s stimulating but sometimes I feel like I will never get to the bottom of my to-do list.
4) What are black holes and why do they play an important role in the universe?
There are two main varieties of black holes. One kind is about the same mass as our Sun. These result from the violent deaths of massive stars. There are probably millions of these in our Galaxy. The other kind, the ones that I research, are supermassive black holes that can be millions or billions of times as massive as the Sun. These monsters lurk at the centers of galaxies, typically only around one per galaxy, and we’re starting to understand that the way they get to be so big has a profound influence on the galaxies themselves. The forces that they produce are so incredibly powerful that they can rip stars apart and send out blast waves that shape the gas and stars that make up the galaxies in which they live.
5) What aspect of black holes are you particularly fascinated by and why?
One thing that I’d like to understand better is why some black holes lurk around not doing very much, sometimes for billions of years, and then switch to violent phases of growth. Understanding how they launch jets of material moving at close to the speed of light, and how collisions of black holes disturb spacetime itself, are areas of active research that I hope we’ll get closer to understanding with the new generation of telescopes that we’re building.
Join us on Wednesday, March 11th for Steve Croft’s seminar, “Snacking, Gorging, and Cannibalizing: The Feeding Habits of Black Holes“ of UC Berkley in Room 207 at Terra Linda High School in San Rafael. For more information, visit Marin Science Seminar’s Facebook page: https://www.facebook.com/events/1540138222921928/.
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Expanding Horizon: How Black Holes Grow

By Talya Klinger, Homeschooler


Contrary to popular opinion, black holes do not exist solely to swallow up your socks, keys, and the last scoop of Rocky Road you were saving for a late night snack. Rather, a black hole is an object with such a large mass in such a small volume that nothing, not even light, can escape its gravitational pull. The black hole’s gravitational pull absorbs whatever is in its reach.

The outer limit of a black hole is an imaginary surface called its event horizon, where the black hole’s gravitational pull is just strong enough that not a single photon can escape, creating a large dark space. According to Einstein’s theory of general relativity, even light rays that pass by the event horizon are bent and distorted by the black hole’s gravity in a process called gravitational lensing. 

This simulation of a spinning supermassive black hole from the movie Interstellar is approximately what a black hole would look like, according to general relativity.

As black holes absorb more and more objects, their mass grows. Not all black holes grow to a similar size, however. Depending on their mass, black holes generally fall into two radically different size categories: stellar mass and supermassive. Most stellar mass black holes, which are 10 to 24 times the size of the sun, are isolated and difficult to detect. Supermassive black holes, on the other hand, are millions or billions of times the size of the sun and are found at the center of most large galaxies, such as the Milky Way. Even when supermassive black holes are not absorbing matter, scientists can observe the effects such black holes have on the stars and gases around them. While stellar mass black holes are more difficult to detect unless they are in the process of absorbing matter, scientists know more about how they form than they do about the formation of supermassive black holes.

 
A simulation of gravitational lensing around a black hole and a galaxy

Many of the properties of black holes are well documented, yet the formation and growth of supermassive black holes are on the cutting edge of astrophysics. Black holes usually form out of supernovas – the explosions at the end of a star’s lifespan. In young or middle-aged stars, the energy created by nuclear fusion counteracts gravity, and keeps a star from collapsing into a black hole. When a massive star reaches the end of its lifespan (when it has burned all the fuel inside of it), it explodes in a phenomenon known as a supernova. Because fusion cannot occur in the remnants of a supernova, when there is not enough energy for the supernova to counteract gravity, there is nothing to prevent the remaining matter from collapsing into a dense object, such as a black hole. By astronomical standards, only supermassive stars have enough matter to become black holes, so small stars, including our sun, merely compact into white dwarfs or neutron stars. (Spoiler alert: the sun will eventually become a white dwarf, so there is no danger of it becoming a black hole.) Scientists know more about the creation of stellar-mass black holes than about the creation of supermassive black holes, but there is a possibility that stellar-mass black holes can grow to a supermassive size by rapidly consuming the matter around them.

Once a black hole forms, it can continue to grow by absorbing more and more matter. The following is theoretical. For example, in binary star systems containing two large stars, the first star to become a black hole will absorb matter from its companion star until the younger star vanishes. When black holes are too far from stars to absorb their matter, they consume the dust and gas floating around them. When two black holes collide, it has been hypothesized that they merge together to become an even larger black hole, producing a whopping amount of energy and sending ripples known as gravitational waves through the universe. 
 A stellar-mass black hole in a binary star system

So far, the only observations of gravitational waves have been contradicted by other, more detailed observations. However, as pairs of supermassive black holes at the centers of distant galaxies spiral closer and closer to each other, the chances are good that we will eventually be able to observe and study such dramatic black hole growth.

In the upcoming Marin Science Seminar, “Snacking, Gorging, and Cannibalizing: The Feeding Habits of Black Holes,” astrophysicist Steve Croft, Ph.D. will discuss how innovative telescope technologies make it possible to observe the growth of black holes in a new way, and perhaps, track disappearances from laundry baskets, tables, and refrigerators once and for all. 

For more information, come to the next Marin Science Seminar at Terra Linda High School from 7:30-8:30 p.m. on March 11th, 2015.

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Why Do We Age?

By Angel Zhou, Branson School


Why do we age? It might seem like a silly question, but scientists have asked it in hopes that they might one day counteract the process.
Never before have so many people lived for so long. Life expectancy has nearly doubled over the last century, and today there are 36.8 million Americans age 65 and older. Longer life has obvious appeal, but it entails personal hardships and financial burdens. In addition to personal hardship, there is also a cost to society. The financial burden of treating the chronic diseases of aging is expected to rise steadily as Baby Boomers get older. Politics may come to be dominated by the old, who might vote themselves ever more generous benefits for which the young must pay. If longer life expectancy simply leads to more years in which pensioners are disabled and demand expensive services, health-care costs may balloon as never before, while other social needs go unmet.
Since 1999, scientists have studied ways to make organisms live much longer, and with better health than they naturally would.  Previous research assumed that chronic diseases arise and should be treated individually. What if, instead, aging is the root cause of many chronic diseases, and aging can be slowed?

The Buck Institute for Research on Aging (http://www.buckinstitute.org) is the nation’s first independent research facility focused solely on understanding the connection between aging and chronic disease. At the Buck Institute, world-class scientists work in a uniquely collaborative environment to understand how normal aging contributes to the development of conditions specifically associated with getting older such as Alzheimer’s and Parkinson’s diseases and cancer. Their interdisciplinary approach brings scientists from disparate fields together to develop diagnostic tests and treatments to prevent or delay these maladies and to ultimately increase the healthy years of life.
The aging of our population — in past decades and in the foreseeable future — presents both a challenge and an opportunity for all of us as we seek to stay healthy throughout our longer lives. If medical interventions to slow aging result in added years of reasonable fitness, life might extend in a sanguine manner, with most men and women living longer in good vigor, and also working longer, keeping pension and health-care subsidies under control. Indeed, the most exciting work being done in longevity science concerns making the later years vibrant, as opposed to simply adding time at the end.


In his Marin Science Seminar, Dr. Lithgow (http://buckinstitute.org/lithgowLab) of the Buck Institute will discuss the mechanisms of aging by identifying agents that extend lifespan or prevent age-related disease and solutions to eventually eradicate the chronic diseases of late life.

Join us this Wednesday, February 25 for this week’s Marin Science Seminar “Do We Have to Grow Old? The New Science of Aging “ with Gordon Lithgow, Ph.D. of the Buck Institute in Room 207 at Terra Linda High School in San Rafael. For more information, visit Marin Science Seminar’s Facebook page: https://www.facebook.com/events/870825009620005/.
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Interview with Art Wallace, MD PhD on Big Data and Medical Innovation

By Angel Zhou, Branson School


Mobile technologies, sensors, genome sequencing, and advances in analytic software now make it possible to capture vast amounts of information that could transform medicine. The question is: can Big Data make health care better?

In the upcoming Marin Science Seminar, “Big Data and Medical Innovation,” Dr. Art Wallace, Chief of Anesthesia Service at the San Francisco VA Medical Center and a Professor of Anesthesiology and Perioperative Care at UCSF Medical Center, will discuss applications of Big Data in medicine and how Big Data has changed epidemiology, quality improvement, and drug discovery. Read the following interview to learn more about Dr. 

Wallace’s thoughts on Big Data and its impact on medical innovation.
Art Wallace, MD PhD

What is Big Data and what is its significance to medicine?  What makes Big Data different from other data that people work with in the healthcare industry?
Big Data is data that is acquired for other purposes that can be analyzed to understand processes, people, and systems. Big Data includes many things: cell phone records, super market purchase card records, credit card records, medical records, internet search terms, medication usage, hospital admissions, social security records, etc. This data can be used for epidemiology to identify associations between factors and outcomes.
Big Data gives additional power to identify factors associated with rare outcomes. I can now easily do a study in 1 million people using data collected for administrative purposes. Doing a study in 1 million patients used to be enormously expensive, now it just requires computer programming and epidemiologic analysis. Before Big Data, the cost of collecting data was prohibitive, so many studies could not be done. With Big Data, there is little to no cost of collecting the data, making the analysis the entire cost for large studies. The profoundly lower costs with Big Data techniques make studies that were previously impossible, possible at minimal cost.
How does Big Data impact professionals in the medical field? Can Big Data be used to improve healthcare?
We have identified factors associated with adverse outcomes, identified medication practices that are associated with increased mortality, identified medications that can reduce morbidity and mortality, and we have identified possible therapies for diseases that have no current therapy. We can reduce morbidity, mortality, cost, and assist in the development of new therapies.
  
Big Data can be used to reduce morbidity, mortality, cost, and improve efficiency. Big Data can be used to ask questions that are morally, politically, technically, socially, ethically, or legally impossible to answer with randomized trials. Big Data is being used to improve quality of life while lowering costs.
Describe how Big Data is reshaping the drug industry?
Big Data can be used to identify medications that reduce or increase risks. Post marketing testing can identify medications that have significant associated morbidity and mortality. For example, we identified a drug that increased mortality risk 5 fold (increased from 3 to 15% with drug use). This use of Big Data led to a medication being taken off the market. It had been used in Europe for 30 years, in the U.S. for 10 years, and it increased the risk of death from 3 to 15%. Big Data was used to identify a very serious risk to patients and led to the medication being taken off the market.
How will Big Data accelerate innovation in medicine?
Big Data will be used to identify new uses of medications. It will identify risk factors for morbidity and mortality. It will lead to further randomized trials.
What are the benefits and dangers of providing Big Data online as the “ever expanding cloud of information” becomes more accessible?
It is easy to identify people from their digital detritus. It is easy to identify very personal things about people from their data trails. Factors such as financial status, interests, sexual orientation, political beliefs, religious beliefs, health status, pre-existing medical conditions, drug and alcohol use, pregnancy status, and proclivities can all be assessed via Big Data. Big Data can be used to manipulate, track, and market to people. At the same time, Big Data can identify very serious risks to patients’ health. Scientific method is an approach; Big Data is a tool. Both can be used for good or bad purposes. Big Data is simply a new and extremely powerful scientific tool.   

Join us Wednesday, February 11th, 2015 to learn more about “Big Data and Medical Innovation” with Dr. Art Wallace from 7:30 – 8:30 PM Terra Linda High School, San Rafael in Room 207.

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Interview with Alex Gunderson, Ph.D: The Price is Wrong

Join us Wednesday, November 19th, 2014 for:

Interview with Alex Gunderson Ph.D.
by Isobel Wright, MSS Intern, Tamalpais HS

How can you compare a game show to climate change and its effect on animals? Well, Alex Gunderson has. Alex Gunderson, Ph.D is a physiological ecologist who specializes in thermal biology and is currently a Postdoctoral Fellow at UC Berkeley. His current research is aimed at answering these questions. How do physiology and behavior interact to influence the vulnerability of ectotherms to climate warming?  How do divergent climatic habitats shape physiological phenotypes, and how does physiological divergence contribute to evolutionary radiations? To answer these questions, he has studied the Caribbean Anolis lizards but is now exploring the crustacean systems. Read the following interview to learn more about his life and work as a physiological ecologist. 

Alex Gunderson, Ph. D.

1.    How did you decide to enter this line of work, as it is so specialized?
I think I gravitated toward biology as a profession because I love being in nature. I grew up in a very rural part of the Midwest where I spent a lot of time outside, on lakes and in the woods. That led me to be interested in how the natural world works.
2. Why did you decide to use the Price is Right as an analogy for the effects of global warming?
The Price is Right was as easy choice for me because it is one of my favorite game shows. When I was in grade school and would get sick and stay home, it was the show I looked forward to watching most. I have always wanted to spin the big wheel!
Anole Lizard

3. What have you learned from working with the Caribbean Anolis lizards?

I have learned a lot! Maybe one of the biggest things is how subtle nature can be. On Puerto Rico there are ten different species of Anolislizard and to most people they all just sort of look like a generic lizard. But when you look closely, you see that they have evolved all of these small differences that allow them to live and thrive in different habitats. It really is amazing!
4. What level of education do you need to do what you do?
It depends on what your ultimate goal is. You can get paid to do biology with a Bachelor’s degree, but many positions require graduate degrees like a Master’s or PhD. My goal is to be a college professor, so a PhD is required.  
5.  If there was one thing you could tell us to do to prevent climate change, what would it be?
The biggest road-block to making progress on climate change is political inaction, so speak up about it through your vote (if you are 18!), letters to politicians, and outreach activities. On a personal level, there are a lot of things you can do to reduce your contribution to climate change. The Nature Conservancy has a great website where you can calculate your carbon footprint and learn about ways to reduce it: http://www.nature.org/greenliving/carboncalculator/ 
6. What was your biggest “Aha” moment in life so far, relating to your work?
I think the biggest “Aha” moment I had was when I decided that I wanted to study how animals adapt to different climates. It was my first year as a PhD student, and I was in Puerto Rico for the first time. I thought I wanted to study the evolution of animal signals, or how animals communicate with one another. I had been studying one species in northern Puerto Rico, but I knew the same species also lived in southern Puerto Rico so I decided to drive down there. I was driving south through the mountains with my cousin Neil (he was helping me do my research) and all of a sudden, the landscape changed dramatically. It went from cool, shady tropical rainforest to hot, dry desert in just a few miles. I thought there was no way the same species could live in such different conditions. But sure enough, the same species was there. I wanted to know how they did it, and my fascination with thermal biology was born!
7. What are the best parts of your job? What are the worst parts?
There are two things that I think are best about my job. First, my job takes me amazing places to study amazing animals. Over the years, I have studied lizards in the Caribbean, frogs in the back-country wilderness of Montana, and seabirds in the Galapagos, to name a few. Hard to beat. Second, in many ways, I am my own boss. With some caveats, I get to decide what I study, where I study it, and how I study it. That kind of freedom is hard to come by in many professions.
The worst part of my job? Writing grants. Because most scientific research doesn’t generate profits like a business, you have to convince other people to give you money to do it. Those “other people”are usually government agencies like the National Science Foundation and the National Institutes of Health. It’s fantastic that they give the money, but the grant writing itself is often extremely tedious. 

Learn more about Alex Gunderson and his research here. 

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