Tag: Research

SFU Undergrad Researcher: Matthew Nguyen

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Introducing Matthew Nguyen of the School of Computing Science and the Department of Molecular Biology and Biochemistry!

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Name: Matthew Nguyen
Faculty: Computing Science & Molecular Biology and Biochemistry
Year of Study: 3rd
Supervisor: Dr. Leonid Chindelevitch of the Department of Computing Science

Q: How did you get involved in research?
A: Back then, I was just an MBB major with some programming interests. At the end of my 2nd year, I decided to email some bioinformatics prof whose research I was interested in. I had only taken 3 CMPT courses, but Dr. Chindelevitch still took me in. Since I lacked the background, I had to do a lot of self-learning but I’m loving it. Working in the lab pretty much solidified my decision to transfer to the joint major, and now here I am!

Q: What have you been working on in your research so far? (What is your research about?)
A: I am finishing up a large scale project to create a computational framework for the classification of pathogens into epidemiologically related groups using genomic data. Specifically, we are combining data from single nucleotide polymorphisms (SNP), multilocus sequence typing (MLST) and copy number variations (CNVs) to cluster different samples of a pathogen in order to understand their relatedness. Currently, I am working on the implementation and analysis of various clustering algorithms to establish the best one. Upon completion, the project will be integrated into an open-source platform (IRIDA) to help public health authorities analyze epidemics.
With the end in sight, I am also starting up a new project: the use of machine learning methods in order to predict antibiotic resistance in tuberculosis.

Q: What is a typical “day in the life” in the lab for you?
A: I technically don’t need to be in the lab to do any work. Since all of my work is done on the servers at the BC Genomes Science Center, I can work from anywhere with internet, even at home or on my phone! But I still enjoy being in the lab as it is useful: I can seek assistance or bounce ideas off of my supervisor or the other members of my lab. I’ve also got a sweet setup of dual monitors (I want a third…) and a mechanical keyboard. My work usually consists of writing or debugging code (Python or BASH), running different software and algorithms, analyzing the results (maybe run some statistical analyses with R) and writing documentation.

Q: What’s your favorite course that you have taken so far in your degree?
A: CMPT 310 with Dr. Maxwell Libbrecht: Artificial Intelligence Survey. AI is one of THE buzzwords right now. Although this is just a survey course, it is a fascinating introduction to a growing field in computing science, a field which became my main research interest. Machine learning is huge in bioinformatics right now, and although I still lack the in-depth knowledge, this course was a refreshing intro to how it all works. I started self-teaching a lot of machine learning after this great intro.

Q: What scares you the most in the lab or the field?
A: Unexpected results that make no sense are horrible to deal with, especially when I have to use someone else’s program in my pipeline. Did I do something wrong? Is the program I’m using just bad? Maybe if I run it again without changing anything it’ll work…

Q: What is your favorite science joke or meme from your field?
A: I may or may not look at memes too much… I can thank Reddit for that. Shameless plug for /r/programmerhumor.

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SFU Undergrad Researcher: Natalie Maslowski

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Introducing Natalie Maslowski of the Department of Biology!

Name: Natalie Maslowski
Major: Biology
Year: 1
Supervisor: Dr. Isabella Cote

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Q: What do you want to be when you grow up?
A: (Short term wise) I am currently aiming to be a part of a biology related research team. (Long term wise), I have always been interested in pursuing a career as a Professor (or some career in academia), when I was much younger I had always been interested in marine biology, so Marine biology Prof?Although I am keeping an open mind towards any possible opportunities in any interesting field, that may come my way.

Q: How did you get involved in research?
A: The first glimpse I got into anything professionally research related, was when I was in grade 11, I volunteered to work under Dr. Cote, as a part of a science co-op in high-school. There I worked with her graduate students, doing very basic tasks volunteering in their lab. However, this summer I hope to delve further into the world of marine research, as a diving assistant to a graduate student.

Q: What will you be working on this summer?
A: This summer I will be working as a marine research assistant diver with a graduate student ( Lilly Haines). The project I will be working for, focuses on fish behavior in a particular species. Essentially testing to see how far away across open sand a Damsel fish will swim to get home, before deciding it’s too dangerous. (Further details are still to be announced).

Q: What’s your favorite course you have taken so far in your degree?
A: So far I have really enjoyed BISC 101/102. I can’t choose between them, I loved learning about plant adaptations and their behavioral responses, as well as learning about community ecology and the beautifully complex interactions between each species.

Q: What scares you the most in the lab or the field?
A: I am afraid to get really sick, I have bad luck when it comes to getting colds, so I hope I leave that bad luck behind when I get to the Bahamas. However, I also fear dropping an oxygen tank on my toes, those are super heavy!

SFU Undergrad Researcher: Andy Zeng

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Introducing Andy Zeng of the Department of Molecular Biology and Biochemistry!

Name: Andy Zeng
Major: Molecular Biology and Biochemistry
Year of Study: Fourth
Supervisors: Angela Brooks Wilson (Genome Sciences Centre, BC Cancer Agency and SFU BPK) and Benjamin Kwok (Institute for Research in Immunology and Cancer, Université de Montreal)

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Q: What do you want to be when you grow up?
A: A clinician-scientist! I would ideally see cancer patients 1-2 days/week and spend the rest of my time running a cancer research lab to improve our standard of care. This fall, I’ll be entering the MD/PhD program at the University of Toronto for my first 8 years of training towards that career!

Q: How did you get involved in research?
A: In first year undergrad, I applied to a bunch of profs to do a summer undergraduate student research award (USRA) with them. Most profs didn’t take me seriously as a first year and didn’t respond, but Angie pretty much offered me a pity interview because it would make for a good learning opportunity. It turned out that I was the only applicant to read her papers before the interview and ask her semi-intelligent questions about it, and that’s how I got the USRA! I used that experience to land an internship in Montreal the following summer, and then finished my thesis in third year summer.

Q: What will you be working on this summer?
A: I’ll be spending the first half of my summer in Vancouver, brushing up on statistics and bioinformatics and learning the basics of machine learning through online courses (datacamp, coursera, EdX, etc). For the second half of my summer in Toronto, I’ll hopefully be getting involved in research on cancer stem cells and getting started on my PhD research.

Q: What have you been working on in your research so far? (What is your research about?)
A: In Angie’s lab at BC Cancer I analyzed the somatic mutational spectrums in mitochondrial DNA (yes, the powerhouse of the cell) of B-Cell Lymphoma patients. We wanted to see if any of these mutations, which affect cell metabolism, contributed to lymphomagenesis. In Ben’s lab at IRIC I designed and ran cell biology experiments testing chemical inhibitors of a cancer-promoting protein on cancer cells.

Q: What’s your favourite course that you have taken so far in your degree?
A: MBB426 & 427- The workload for 426 is soul crushing but you walk out of the courses knowing a mind-blowing amount of immunology! But to be honest, I believe that the most enriching learning experiences during undergrad comes from extracurriculars and research.

Q: Favourite science joke or meme from your field?
A: Haemolytic Memes for Anaemic Teens (Facebook Page) is a lot funnier than it should be. Every time I laugh, I’m reminded that I am a huge nerd who appreciates these memes a little too much. It’s odd – these memes somehow manage to make you both smarter and dumber at the same time.

Q: What scares you the most in the lab or the field?
A: Failure and negative results. It happened in my Montréal work term and it’s inevitable. But if you ask the right questions, understand the larger reason for why you are doing the work, and strive to enjoy the process (being open to learn and genuinely curious about what you’ll discover), then it minimizes the blow.

A quick word of advice for those embarking on a research term:
Your research term is not just a 9-5 job, it’s a learning opportunity that can be far more enriching than a semester of classes. Treat it as a learning opportunity: dive into the literature and put in the same amount of effort into your research as you would in a 5-course semester. You’ll be surprised at how much you’ll grow, and you might even get some publications out of it!
 

SFU Undergrad Researcher: Stephanie Lam

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Introducing Stephanie Lam of the Faculty of Health Sciences!

Name: Stephanie Lam
Major: Health Sciences
Year of Study: 3rd
Supervisor: Dr. Angela Devlin, UBC Faculty of Medicine

STEPHANIE LAM

Q: What do you want to be when you grow up?
A: Pediatrician

Q: How did you get involved in research?
A: I was particularly interested in medical research and I started to do my own research on areas of research within the faculty of medicine. Luckily, I came across many researchers located in CFRI that researched areas that were very interesting to me and I contacted Dr. Devlin to see if there is anything I could get involved with.

Q: What have you been working on in your research so far? (What is your research about?)
A: I am helping out with a human project that aims to understand cardiovascular outcomes that are affected by second-generation antipsychotic treatment. We are also trying to identify biomarkers that can be used to identify children who may be at risk for cardiometabolic side effects.

Q: What is a typical “day in the life” in the lab for you?
A: DNA/RNA extraction from blood cells, genotyping, blood processing, mouse work

Q: What scares you the most in the lab or the field?
A: The thing that scares me the most in the lab is making a small mistake that could cost the lab a lot of money and time. When working with such tiny amounts of samples, I am often scared that my lab technique is inadequate and won’t give the desired results. With the nature of this project, our samples are often very limited and must be used carefully.

SFU Undergrad Researcher: James Marquis

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Next up in our series of brilliant SFU undergrads, we have James Marquis of the Department of Molecular Biology and Biochemistry!

Name: James Marquis
Major: Molecular Biology and Biochemistry
Year of Study: 4th
Supervisor (PI): Dr. Dipankar Sen

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Q: What do you want to be when you grow up?
A: I always want to become a biochemist and an innovator who develops better products for not only scientists but also the general public.

Q: How did you get involved in research?
A: I was randomly browsing the SFU biology web page back in my first year here. I saw an advertisement for a research position to analyze avian blood sample. I was just curious what they are doing with bird blood, so I applied and got in. Then I have been working in different labs in both biology and MBB since then.

Q: What will you be working on this summer?
A: I will be writing a research proposal for a master project that develops new DNA aptamer that catalyze the ruthenium-catalyzed olefin metathesis. It is simply to screen for potential catalytic DNA that can facilitate large-sized ring closing reaction.

Q: What have you been working on in your research so far? (What is your research about?)
A: My first lab project was about quantifying red blood cells precursor in avian blood to predict the bird’s oxygen carrying capacity. Then I moved on to a side project that looked that the effect of male bird social behaviour (singing) on female birds breeding phenology and performance. Then I switched to a genetic/developmental biology lab to work on the Wnt/Wingless signaling in Drosophila (fruit flies) in my third year. Right now I am preparing to start my master degree studying the catalytic activity of DNA/RNA.

Q: What is a typical “day in the life” in the lab for you?
A: I’m usually in the lab around 9am doing lab work till 5pm in the evening, nothing exciting.

Q: What’s your favourite course that you have taken so far in your degree?
A: I would the special topic course (MBB420) taught by Dr. Sen / Dr. Hawkins

Q: If you were a scientific lab instrument, which one would you be?
A: I would be a pipet, because I am a sucker for science.

Q: Who is your biggest science crush?
A: Dr. Peter Schultz. I was very privileged to meet him in person at a conference and he really inspired me to pursue my interest in the biochemistry field.

Q: What’s the funniest thing in the lab that’s happened to you?
A: We dressed up as Christmas trees and worked in the lab during the holiday season one winter, and it was quite funny and memorable.

Q: What scares you the most in the lab or the field?
A: Getting no data from my experiments

SFU Undergrad Researchers: Jennifer Yi

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Next up in our series of brilliant SFU researchers, we have Jennifer Yi of the Faculty of Health Sciences!

Name: Jennifer Yi
Year: First Year
Major: Health Sciences, Concetration in Life Sciences
Supervisor: Dr. Glen Tibbits

 

Q: What do you want to be when you grow up?
A: I want to work in the healthcare system or work with World Health Organization.

 

Q: How did you get involved in research?
A: I got involved in research through a science fair project on Type 2 Diabetes and Interleukin 6 at the BC Children’s Hospital Research Institute two years ago. I wanted to keep conducting scientific research at a lab at SFU so I applied for a NSERC USRA at Dr. Tibbits’ lab in the SFU Molecular Cardiac Physiology Group this semester.

 

Q: What will you be working on this summer? 
A: I will be working on a project trying to detail how a TNNI mutation may be related to sudden unexpected death in infants in terms of causing hypertrophic cardiomyopathy by arrhythmia.

 

Q: What have you been working on in your research so far? (What is your research about?)
A: So far, I have been busy catching up on knowledge about cardiomyocytes for this summer and learning how to use CRISPR, which is very exciting.

 

Q: What’s your favourite course that you have taken so far in your degree?
A: BISC101: Dr. Megan Barker made this course the best one I’ve taken out of all my classes at SFU.

SFU Undergrad Researcher: Ruvini Amarasekera

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Next up in our series of brilliant SFU researchers, we have Ruvini Amarasekera of the Department of Biomedical Physiology and Kinesiology!

Name: Ruvini Amarasekera
Year of Study: 2nd
Major: Biomedical Physiology
PI: Dr. Maureen Ashe, Center for Hip Health and Mobility
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Q: How did you get involved in research?
A: I wanted to work in a lab that took a new perspective on healthcare; somewhere I could apply both my physiology and psychology background- and this is what I found! Many people have the misconception that research only entails sitting at a bench pipetting all day, but there is also a clinical side where there’s an opportunity to interact directly with subjects. Research is a very broad field of work and there is something for everyone!
Q: What is your research about?
A: Our research focuses on the psychosocial determinants of health; essentially we realize that healthcare goes far beyond hospitals and doctors’ offices, and we are looking into what those factors are. We want to shift healthcare and medicine to a preventative approach; we want to change the way people live so that they don’t get sick in the first place, instead of only treating people once they are already sick!
Q: What will you be working on this summer?
A: This summer I’m very excited to be taking on a project where I’ll be exploring the influence of built and social environments on community mobility, specifically for older adults living in rural communities.
Q: What is a typical “day in the life” in the lab for you?
A: Every day varies; there are some days where I am sitting at a computer doing preliminary data research on the communities we will be studying, there are days where I’m working very closely with my professor or grad students, and in the summer I’ll be going out to these rural communities to work directly with our subjects.
Q: Who is your biggest science crush?
A: Currently, Marc Lewis. I’m reading a book authored by him called “The Biology of Desire: Why Addiction is Not a Disease” where he presents quite a controversial model of addiction. Lewis is a neuroscientist but perhaps more interestingly, a former addict and he asks the tough questions about how we frame mental illnesses (specifically, addiction). He focuses on the intersections of neurophysiology and sociology and really is making me think about the overlap between the two.

SFU Undergrad Researcher: Henry Tran

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Next up in our series of brilliant SFU researchers, we have Henry Tran!

Name: Kim Hoang (Henry) Tran
Majors: Behavioural Neuroscience and English
Year of Study: Third
Supervisor: Chris Kennedy

HENRY TRAN

Q: What do you want to be when you grow up?
A: Medical Oncologist

 

Q: How did you get involved in research?
A: Fabiola, my BISC 101 TA talked about the environmental toxicology research she was doing with Dr. Kennedy and I was really fascinated by it, so I asked Dr. Kennedy to volunteer in his lab.

 

Q: What will you be working on this summer?
A: This summer I will be studying the lethal and sublethal toxicity of four anti-parasitic chemotherapeutants: ivermectin, SLICE®, Salmosan® and Paramove 50® on marine benthic organisms (crustaceans, bivalves, annelids and echinoderms). In doing so, I hope to address the environmental risks and consequences affiliated with them and how to in turn, to properly manage them for the stewardship of Canada’s coastal areas.

 

Q: What have you been working in your research so far?
A: So far, I’ve been working with Msc. candidate, Kassondra Rhodenizer, on studying the effects of Corexit and bitumen on crustaceans off the coast of B.C. We’ve been analyzing how these shrimp’s feeding behaviour have altered after they have been exposed to these chemicals.

 

Q: What’s your favourite course that you have taken so far in your degree?
A: BPK 205, Human Physiology with Nadine Wicks!

 

Q: What is a typical “day in the life “ in the lab for you?
A: Preparing solutions and then exposing the shrimps in to these solutions.

 

Q: What scares you the most in the lab?
A: The shrimps are extremely jumpy so when you transfer them to different tanks, it’s quite nerve-racking because they can jump out of the net and they thrash a lot.

SFU Undergrad Researcher: Joseph Lucero

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Next up in our series of brilliant SFU undergrad scientists, we have Joseph Lucero of the Department of Physics!

Name: Joseph Lucero
Major: Biophysics
Year: Fourth
Supervisors: David A. Sivak, Leonid Chindelevitch

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Q: What do you want to be when you grow up?
A: In an ideal world I would like to become a doctor of some sort! PhD or MD, whichever one comes first, I’m not really that picky haha.

Q: What have you been working on in your research so far? What is your research about?
A: The Physics Department here at SFU has a program called “Adopt-A-Physicist” that helps first-year students get exposed to research. I was paired with the Sivak Theoretical/computational biophysics group and began getting involved in research, albeit in a passive sort of way: in my first year I sat in on the group’s weekly meeting and learned how theory-based research was conducted, while simultaneously reading related scientific literature outside of these meetings. After a year, this passive role transitioned into a more active one where I began my own research project.

Q: What is a typical “day in the life” in the lab for you?
A: A day in the lab for me usually involves one of three things: debugging code and running numerical simulations, analyzing the outputs of these simulations, literature review, and speaking with other members of the group or my supervisor about things that I am stuck on.

Q: What will you be working on this summer?
A: This summer will be a sort of departure for me, as my summer research project will be in Computer Science with the Chindelevitch group as opposed to my usual home in Biological Physics with the Sivak group. My summer research project involves developing a novel method/algorithm that is able to construct tuberculosis (TB) phylogenies and be applied to a large collection of existing TB data.

Q: What’s your favorite course that you have taken so far in your degree?
A: I would say that my favourite course out of the ones that I have taken so far, would probably be Physics 384: Mathematical Methods of Theoretical Physics. It was a very interesting course that introduced me to the mathematical techniques used by physicists every day and it served to unlock the sections of the research literature which, before I took this course, were impenetrable simply because I lacked knowledge of what all the symbols meant and the methods that they used.

SFU Undergrad Researcher: Parmida Atashzay

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Next up in our series of brilliant SFU scientists, we introduce Parmida Atashzay!

Name: Parmida Atashzay
Faculty: Molecular Biology and biochemistry
Year of Study: 4th
Supervisor: Dr. William Davidson

PARMIDA ATASHZAY

Q: What do you want to be when you grow up?
A: I have always wanted to be a doctor since I was 4 years old and I always worked hard to reach that goal.

 

Q: How did you get involved in research?
A: I knew research will be one big step for me to get close to my ultimate goal so I started going to different seminars when I was in high school and I kept asking around to see if any of the professors need a volunteer. Finally, the head of the microbiology department from Michael Smith Lab at UBC accepted me and asked me to volunteer at Michael Smith Labs. This is how I got into getting more experiences and getting the job I have right now.

 

Q: What is your research about?
A: I am currently working on interaction between two specific proteins at Dr. Davidson’s Genetic Lab and I will be continuing to work on this project until I find a answer. Also, I will be working in Dr. Audas lab as well this summer as a research student.

 

Q: What is a typical day in the life for you in the lab?
A: My typical day since I started working in the lab is that I usually wake up early and come to the lab and start working on different experiments, then i will go to my classes and I will come back in the Lab to finish my experiments. Basically, I am in the lab over 8 hours a day and have full time course load which makes it a bit difficult but still manageable.

 

Q: Favorite course?
A: One of my favourite course that I took at SFU is MBB 463 Forensic Genomics. If you haven’t taken this course I highly recommend it. This course is reason why I have my current research job.

 

Q: What scares you the most in the lab?
A:What scares me the most in the lab is to fail and not be able to continue with the project and also I keep asking myself am I working hard enough? Or is my supervisor happy with my work? However, there is one thing i have learnt from masters and PhD students in my lab, they said “every experiment fails 80% of the time and you are lucky if everything works out well the first time you try it”. So if your planning on working in the lab always keep that in mind and never give up