Category Archives: Career Feature

Dr. Sarah Pendergrass: Mining Electronic Health Records for Discovery

Dr. Sarah Pendergrass

Bioinformatics is not just an academic buzzword: pharmaceutical, biotechnology, and healthcare companies are quickly realizing the importance of applying computational tools to glean meaning from large biological datasets. In addition to the Huck Institute’s Bioinformatics and Genomics program, scientists in other programs are discovering how bioinformatics can help their own research. Some students who currently work in wet labs may be curious about pursuing careers in bioinformatics following graduation. However, the transition from the bench to the computer screen may seem just as daunting as the transition from academia to industry. Dr. Sarah Pendergrass, a bioinformatician in Geisinger Health System, provided insights on pursuing careers in bioinformatics in the private sector when she visited Penn State in September, as part of a visit was hosted by HGSAC. Afterward, HGSAC interviewed her about her career path and advice for current students.

Dr. Pendergrass is an Investigator I in the Biomedical and Translational Informatics Program at Geisinger Health System, working as a genetic bioinformatician. Her work focuses on high-throughput data analysis and data-mining projects for uncovering the genetic architecture of complex human diseases and traits. This includes coupling genotypic data with de-identified electronic health record data, population survey based data, clinical study data, and pharmacological study data. She is interested in incorporating environmental exposure data in analyses of disease susceptibility and analyses across ancestry. She has extensive experience developing novel methodologies and performing high-throughput analyses for discovery, such as those for Phenome-Wide Association Studies (PheWAS), which work to identify cross-phenotype associations and pleiotropy.

During her PhD at Dartmouth College, she worked on gene expression analyses and bioinformatics, with projects leveraging the complexity of gene-expression data for biomarker and biological discovery for the disease systemic sclerosis. She is a former staff scientist of Dr. Marylyn Ritchie where she did GWAS studies and computational biology. Her master’s degree in biomedical engineering and bachelor’s degree in physics have provided her with additional technical and analytical expertise for complex data-driven projects. Dr. Pendergrass also has extensive experience with developing software tools aimed at analyzing and visualizing complex data including PhenoGram, PhenoGram-Genie, Synthesis View, and PheWAS-View.

What’s your educational background? Is there anything specific that prepared you for your current career?

If I can suggest anything: diversify. Explore projects you find interesting, and follow data that you are excited about. I have had a varied career, with a bachelors in physics, masters in biomedical engineering, PhD in genetics, and a postdoc in human genetics. While challenging to have shifted around, all of the projects ultimately have been complementary and important contributors to later projects, even if I did not realize it at the time.

What are your current roles and responsibilities? How have these changed over time?

I am starting a lab in a new program, with new data, and some very new collaborations. This is very different from when I was a staff scientist, when I had many “known projects” ongoing. Right now I wear many hats and am trying to learn as much as I can in all those roles to help get the lab off the ground.

Was this career path something you had always considered?

I think I knew as a kid I wanted to be a scientist, but I only knew about park rangers and later, biologists. So I assumed those were my two career choices given my interests, until college when I realized there were so many things I could do with an interest in science.

What skills have made you and others in your field successful?

Creativity, flexibility, curiosity, a sense of adventure, asking questions no one else thinks to ask

Were there any unexpected skills that you needed to learn?

How to handle competitive and unkind behavior from fellow scientists

What’s the most challenging part of your career?

Keeping up. And having a life balance while keeping up. This is a daily struggle.

How do you think your career will change in both the near and distant future?

Things are changing so fast at present. You should probably ask me in a year about what happened and my projections for the future.

What can young scientists do to prepare for careers in genetics and bioinformatics? Any tips on specific ways to network in the field?

Take courses in –omic data that interest you, particularly if they have “hands on” components. If you can’t find those courses specifically in your graduate program, take courses at places like Cold Spring Harbor.

Identify authors of papers you find interesting, and try to find ways to talk with them, or if you can’t reach those authors somehow, talk to the graduate students that worked on those papers. Also, if you can’t network through your mentor, see if your thesis committee members have networking connections to help you reach out to scientists outside of Penn State. Find researchers at Penn State you think are doing interesting work, and try to set up a time to talk with them and ask them how they got to where they are. These are all ways to build relationships and networking that carry forward.

If you weren’t at Geisinger, where do you think or where would you like to be?

Nowhere else I would like to be right now career wise. Unless you mean on a vacation, then if so, I would like to be backpacking in Patagonia.

How easy/difficult is it to balance work and personal/family life in your career as a genetic bioinformatician at Geisinger?

It is very hard to balance work and personal/family life as a scientist “climbing the ranks”. But I do what I can.

What advice do you have, about anything, for current graduate students?

The same thing I noted at the beginning. Don’t decide that your current PhD or what you study, or what your academic path has been, defines your future science. Diversify. Explore projects you find interesting, and follow data that you are excited about. Explore possibilities. It is tough spending plenty of time out of your comfort zone, but as one poster said “that is where the magic happens”.

Also, find your mentors. Find experienced scientists you trust, with a range of viewpoints. And then remember to reach out to them with questions. I used to think I was supposed to behave like I “knew it all”. And then I saw that some of the most successful scientists I know are successful in part because they always talk about things with their mentors and get great advice. In the end each person has to decide what works for them, but the expert advice can sometimes be just the right information at just the right time.

And for goodness sake, GO OUTSIDE once and a while (if you are not an ecologist) and remember there is also good life outside of graduate school and chasing after manuscripts. Stand on top of a mountain and have some fresh air. Sometimes that is the perspective you need, to not get too tied up in things that ultimately are not the most important things.

Dr. Peter Emanuel, military researcher

In graduate school, we spend most of our time on our research, teaching, and improving skills that we hope will be useful in the future.  However, many of us are unsure about what careers are available to us, what these jobs entail, and how to make ourselves better candidates for these careers.  So then how do we appropriately plan for a future that is still up in the air? 

One of the main mission goals of the Huck Graduate Student Advisory Committee (HGSAC) is to provide information, resources, and events to graduate students to help in this very daunting decision making process.  The HGSAC often collaborates with multiple organizations to bring speakers from various fields to talk about their diverse careers, and to meet with graduate students to answer our questions, as part of our Career Exposure Seminar Series.

Dr. Peter Emanuel came to Penn State in October to discuss his role as Acting Director of Research at ECBC as part of the HGSAC's Career Exposure Seminar Series.
Dr. Peter Emanuel came to Penn State in October to discuss his role as Acting Director of Research at ECBC as part of the HGSAC’s Career Exposure Seminar Series.

Last month, the HGSAC and the Biochemistry and Molecular Biology (BMB) department co-hosted Dr. Peter Emanuel, a Penn State BMB alum, to talk about his position as Acting Director of Research at the U.S. Army’s Edgewood Chemical and Biological Center (ECBC).  Below are several questions that Dr. Emanuel addressed during his seminar.

What is ECBC?

Edgewood Chemical and Biological Center is a biodefense facility where 1,500 personnel work towards protecting troops and civilians by developing technologies aimed at detecting, neutralizing and decontaminating chemical and biological agents.  They are the nation’s provider of innovative solutions to counter weapons of mass destruction (WMD) threats.

One of the most rewarding aspects of working at ECBC is the continuing dedication to solving some of the worlds most difficult problems.  The overarching vision of ECBC is to work towards a world free of WMDs.
One of the most rewarding aspects of working at ECBC is the continuing dedication to solving some of the worlds most difficult problems. The overarching vision of ECBC is to work towards a world free of WMDs.

Why do research for the military?

When you work with the U.S. government, you are able to see the results of your work and know the people who use your products.  Dr. Emanuel emphasized the unique opportunity that this work provides you, in that you are able to implement an idea into a product in a short amount of time, and oversee each step of the process along the way.

What kind of work could a PSU science graduate student do at ECBC?

If a graduate student were to apply for the National Research Council Fellowship, they would work for 2 years at ECBC or a related center, where you would lead your own project(s) as the principal investigator.   This would include creating your own product and licensing it. Some of the projects that are ongoing at ECBC include volatile organic compound identifier products and storing information in bacterial DNA.

Scientist at ECBC have successfully been able to store the digital information for how to 3D print the imperial death star inside a single bacteria.  Yeah, you read that right.  Sometimes science is especially cool.  Image source: https://www.flickr.com/photos/cosmobc/4484688366
Scientist at ECBC have successfully been able to store the digital information for how to 3D print the imperial death star inside a single bacteria. Yeah, you read that right. Sometimes science is especially cool. Image source. 

How is working in a biodefense lab different from working in the pharmaceutical industry?

Working at pharmaceutical companies can be more constraining than working in a biodefense lab, especially since you cannot share too much of your science when you’re working in a pharmaceutical company.  As compared to a majority of big pharma companies, at ECBC you get more ownership of your product.   You can patent and share your products with others.

What are some perks of working at ECBC?

Working at ECBC, you get to reinvent your career pretty regularly and you get to oversee the many stages that your product undergoes.  You also get to collaborate with diverse groups such as academics, engineers, scientists, government, and information technologists.

What do you look for in a job candidate?

ECBC looks for people who are good at learning, good communicators, and hard workers.  Also, you have to be a national U.S. citizen.

Dr. Emanuel was able to meet with graduate students for breakfast and lunch, providing a platform for students to ask their own questions.  I should also note that at least 3 people who met with Dr. Emanuel were able to get interviews.  So, in the future, look out for these opportunities via email (from psu.hgsac@gmail.com or jtl190@psu.edu), on our HGSAC website, and on our facebook page.

Maiysha Jones: Preparing for What’s Next: An Industry Perspective

As graduate students progress from year 1, to year 2, to year n, the question is always “what do I do after I graduate?” That can be a terrifying though, venturing into a world totally different from academia. Luckily, the Huck Graduate Student Advisory Committee (HGSAC) has got your back! The Career Exposure Seminar Series is designed to not only expose students to careers they can pursue with a PhD in science, but also discusses how to get a job and succeed in that field.

This past July, the HGSAC and BMB invited Dr. Maiysha Jones, a Senior Scientist at Proctor and Gamble, to discuss what she does at her job,and how she got there.

Jones

Jones received her B.S in Biology from Xavier University in Louisiana. After deciding that a career in medicine was not the right job for her, Jones’s undergraduate advisor helped her get an internship at a summer program designed to expose students to environmental science. It was at this program that Jones discovered her love of research. After graduating from Xavier, Jones secured an internship at Proctor and Gamble (P&G), optimizing an existing assay to evaluate the effects of surfactants on biological oxygen demand removal and nitrification in wastewater discharged to surface waters.

Jones then went on to get her PhD in Environmental Sciences and Engineering at the University of North Carolina-Chapel Hill, but kept in touch with her manager at P&G. Jones’s thesis was on identifying bacteria capable of degrading polycyclic aromatic hydrocarbons (PAHs) in PAH-contaminated soil. After she graduated, she applied to P&G, among other companies and post-docs, and piqued the interest of two groups within P&G.

Upon her arrival at P&G, Jones assumed global responsibility for all microbiology related needs for shampoo brands. Within 1 year, she added Olay and DDF skin care brand initiative responsibilities, and began volunteering for recruiting activities. Currently, Jones is in charge of global quality and compliance for Research and Development (R&D), and in-market initiatives for cosmetic and professional shampoo, hair color, and leave-on hair treatments.

After Jones’s seminar, she sat down with the HGSAC and gave some advice on pursuing a career in industry, and tips on succeeding.

What skills have made you and others in your field successful? Were there any unexpected skills that you needed to learn?

A good scientist will clearly define the problem before proposing any solutions. This enables one to see the big picture, brainstorm approaches without bias, and determine the resources required to address the scenario. Knowing from the beginning how your work fits in and how your piece advances knowledge will facilitate the most efficient path to solving the problem be it technical or interpersonal. The PhD process builds endurance, and it teaches us how to ask questions, troubleshoot challenges, and remain calm through the process. You have the skills you need to be successful, but you may need to train yourself to apply them in a different way.

What’s the most challenging part of your career?

Expect that a career in industry will include fast-paced, externally-focused, market-driven, applied research that meets a need or solves a problem. You will likely be developing products or services to sell or influencing consumers to buy something. Each of these activities brings its own challenges from collaborating with diverse, multifunctional teams, to managing budgets, to delivering results under very compressed timings. The key to overcoming such challenges is to set clear expectations, to keep communication open, honest, and timely, and to make decisions based on the data available.

How do you think your career will change in both the near and distant future?

In the near future I will begin a role in P&G’s Global Clinical Sciences Organization where I will have responsibility for designing clinical trials to generate data to support product claims and defend our competitive advantage. In the distant future, I will continue to find innovative ways to contribute to the delivery of products that consumers crave.

What can a young scientist do to position him or herself for a career in industry? Any tips on specific ways to network in the field?

People that thrive in industry are innovative, creative thinkers that make non-obvious connections, are comfortable with frequent changes, are not afraid to take smart risks, and that thrive on seeing the tangible fruit of their work. If you are interested in a career in industry, seek to recognize and enhance these personal attributes in your professional endeavors.

The simplest approach to networking in any field is to put yourself out there! Have a professional presence on social media. Make time to submit abstracts to and to participate in conferences. Apply to internships with various companies. Look for opportunities to build collaborations with researchers at private labs. Apply, apply, apply, but have a strategy, and execute against it.

If you weren’t at Procter & Gamble where do you think or where would you like to be?

In addition to my passion for contributing to the development of young professionals in the sciences, I have a passion for cooking and sharing food and for experiencing other cultures. If I was not working for P&G, I would own a food-related business or have a career where my job would be to travel the world.

How easy/difficult is it to balance work and family life in your career as a Senior Scientist?

Research shows that happy employees are more productive at work. Because of this, work and life balance has become more and more important to employers. Many companies, including P&G have programs in place to help employees manage personal crises as well as day to day matters like finding childcare. Knowing that P&G supports having a balanced life makes it easy to manage my career and personal interests without worrying whether I am neglecting one or the other.

What advice do you have, about anything, for current graduate students?

Do what you love, and the money will come. Take that postdoc in Paris. Move your family across the country. Ask the questions no one else has the moxie to ask. As long as you grow with each experience, and as long as each experience moves you closer to your definition of personal satisfaction….take the risk, great opportunities await.

 

Stay tuned for more Career Seminars, and blog posts on them!

Beverly Purnell: “Scientific Publishing from the Inside Out”

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So what’s next? Industry or academia?

When discussing a graduate student’s future career plans, this is the question that is usually asked: Do you want to do research in industry or academia? What many graduate students don’t realize is that there is a multitude of career paths that are available to them with a Ph.D. in the life sciences, and many of these career paths don’t include bench work at all!

Beverly Purnell photoDr. Beverly Purnell, Senior Editor at Science magazine and Penn State alumnus, made her way back to Happy Valley on May 29, 2015 to speak to students, faculty, and staff in a two-part seminar about her career path and responsibilities as well as about the process of publishing a paper in Science. As a Senior Editor, Purnell serves as a gatekeeper, working as a member of a team that has to turn more than 10,000 submissions into 700 published articles each year.

With 200+ students and faculty present to fill the Berg auditorium in the Life Sciences Building, Purnell’s seminar was the first in the Career Exposure and Professional Development Seminar Series. This seminar series was started by the Huck Graduate Student Advisory Committee (HGSAC), a group of student leaders from the Huck Institutes of the Life Sciences and the BMMB graduate program.

In addition to her seminar, there were two opportunities for graduate students to meet with Dr. Purnell in small group settings (no more than eight students). I myself attended one of these small group meetings, and I really enjoyed hearing from Dr. Purnell more one-on-one. Students were able to ask her more personalized question about her career and what it takes to get into a career as a science editor.

Just in case you weren’t able to attend Dr. Purnell’s seminar or you’re just looking for more of the “inside scoop” on being a science editor, the HGSAC sent a follow-up questionnaire to Dr. Purnell to get some extra information about her career and advice she has for young scientists:

What’s your educational background? Is there anything specific that prepared you for your current career?

I graduated from a small liberal arts school with a double major in biology and chemistry and a minor in math.  At Penn State, I obtained a Master’s degree and PhD in the department of Molecular and Cell Biology.

Working in several research areas helped prepare me for the broad coverage of research handled by an editor.  While an undergraduate student, I worked at a USDA Agricultural Research Station with a stone fruit breeder.  Over the summer between undergraduate and graduate school, I had an internship at the NIAID, National Institutes of Health.  My research for the Master’s degree and PhD at Penn State included two different models and systems.  The Master’s research was in sex determination of the nematode C. elegans and my PhD research was on Drosophila basic transcription machinery.  Then my postdoctoral work at the Max Planck Institute of Biophysical Chemistry spanned Drosophila gene regulation and developmental biology.

I feel that the international perspective and exposure gained while doing the postdoc in Germany was helpful—whether communicating with international researchers or for the considerable amount of travel of an editor.

What are your current roles/responsibilities? How have these changed over time?

A Science editor has three major jobs: solicitation, selection, and editing.  Solicitation entails attendance at international meetings and visiting labs to find out about exciting research for possible submission to the journal.  The editing that we do is technical editing.  Copyeditors take care of grammar and style issues.  The largest part of the job is in the selection of papers for publication in Science.  We reject about 75% of papers without in-depth review.  For the remaining 25%, we select international experts to evaluate the work.  Finally, about 1/3 of papers that go to review are published.  These general duties have remained largely the same over time but the areas of editor coverage shift with changes in research trends/advances.

Was this career path something you had always considered?

No, an editing career was not something that crossed my mind.  As I was applying for positions to come back to the U.S. from the postdoc in Germany, I saw the ad for Editor at Science.  The job description sounded very interesting.  I applied for the position at the same time as applying for research positions.  I thought that if I did not enjoy the editing job after about two years, I could still go back to the bench.  However, 18 years have passed and I’m quite happy with my decision.

What skills have made you and others in your field successful? Were there any unexpected skills that you needed to learn?

The science world is constantly shifting. To be successful, an editor must be open-minded in order to discern which advances will take us in a new direction. Listening to and communicating with researchers, as well as keeping up on the literature, are key. This aspect of the editor’s job is separate from written communication. Editors frequently write for a technical or general audience, and this is a skill that continues to develop over the years. However, publishing research extends beyond communication with scientists. Several departments cooperate in the presentation of papers. Once a manuscript has been accepted, editors work with staff in many different departments for copyediting, art and online presentation, commentary, as well as News and public outreach. All of these aspects make for a varied, interesting, and sometimes hectic job.

What’s the most challenging part of your career?

The first year at Science was quite challenging since my work shifted from a very focused area to that which covers many different disciplines.  Editors must keep up on their own topics and papers but also comment on submissions that are circulated from fellow editors. Keeping up on submissions and circulated manuscripts, while at the same time attending international conferences and reading the literature, is challenging and requires considerable dedication and organization.

How do you think your career will change in both the near and distant future?

The means by which science is disseminated is ever-changing.  We have seen a major shift from a focus on the print to the digital product.  I expect that digital features and opportunities as well as social media will continue to expand.

What can a young scientist do to position him or herself for a career in science editing? Any tips on specific ways to network in the field?

Conducting top-notch research is most important.  Editors at Science need to be able to think critically and present work in a clear and logical manner.  Furthermore, participating in science review, such as journal clubs, in-depth review for journals, or evaluating grant proposals for colleagues, can be helpful.

Regarding networking, top international meetings provide networking opportunities—whether presenting a talk or poster or just sitting across the dinner table talking science.  Collaborative science is also helpful in extending one’s reach.

If you weren’t at Science, where do you think or where would you like to be? 

Although some people take editing positions because they are fed up with research, that was not my situation.  I truly enjoyed working at the bench.  If I had not taken the job at Science, I expect that I would be doing research in academia or industry.

Outside of research, the communication and dissemination of science, including education, are areas for which I have a particular interest, so my career might have taken one of those directions.

How easy/difficult is it to balance work and family life in your career as a science editor? 

One reason that I decided to apply for the job as an editor was that I viewed it as a potentially family-friendly job.  Editors often put in long hours, but this is true of most people in the sciences.  I have definitely found it possible to balance work and family life.  Once editors have worked for several years as an Associate Editor, there has been the option to work remotely.  I took advantage of this 14 years ago—after working in the DC office for four years. Telecommuting eliminates time-consuming commuting and allows for more family time.

What advice do you have, about anything, for current graduate students?

Keep your options open.  Many different science avenues can lead to worthwhile and fulfilling positions—at both a personal and professional level.  If something sounds potentially interesting, check it out.