Senior Spotlight: Justin Koch

Caltech's class of 2015 is group of smart, creative, and curious individuals. They are analytical thinkers, performers, researchers, engineers, athletes, and leaders who are ready to apply the lessons they have learned from Caltech's rigorous academic environment and the unique experiences they had as part of this close-knit community to pursue future challenges. 

We talked to two of these graduates, Justin Koch and Phoebe Ann, about their years at Caltech and what will come next.

Other graduates share their stories in videos posted on Caltech's Facebook page.

Watch as they and their peers are honored at Caltech's 121st commencement on June 12 at 10 a.m. If you can't be in Pasadena, the ceremony will be live-streamed at You may also follow the action and share your favorite commencement moments on Facebook, Twitter, and Instagram by using #Caltech2015 in your tweets and postings.


Justin Koch

Major: Mechanical Engineering
House: Blacker
Hometown: Townsend, Delaware

Why did you originally decide to come to Caltech?

The rigorous academic environment was certainly a consideration in choosing Caltech. However, I really made my decision after visiting the campus for Prefrosh Weekend. I found the housing system to be a unique experience that was something I had not seen at other schools.

Were you involved in extracurricular activities at Caltech?

The main extracurricular activity I'm involved with is the Caltech Robotics Team. I was part of the group that founded the club my freshmen year, and for the past two years I've led the team through my role as project manager. I've been interested in robotics since middle school and have been involved with robotics teams since sixth grade. We are currently building an underwater autonomous vehicle for a competition called RoboSub.

This past year I've also served as president of Blacker House. I've enjoyed the opportunity to give back to my house, which has definitely helped me enjoy my experience at Caltech.

What was your most memorable experience?

One of my most memorable experiences at Caltech was participating in the ME 72 competition my junior year. We spent two terms designing and building robots to compete in a competition involving head-to-head battle between robots trying to get a soup can to the top of a raised platform. Our hard work paid off and we ended up winning the competition. Though the competition was memorable, I'll never forget all the long hours we spent building the robots.

What did you not know about Caltech that you learned after being here?

I did not fully understand quite how focused Caltech is on theory and research until after arriving here. The rigor of the classes was definitely much harder than anything I had ever done before. However, through my involvement with the Caltech Robotics Team I've been able to balance my knowledge of theory through classes with the applied technical skills I learn through the team.

What will you be doing after Caltech?

After Caltech I will be working as a robotics engineer at the NASA Jet Propulsion Lab. I'll be working in section 347 on robotic systems for a variety of environments, including land, space, and ocean applications.

Throughout my career I hope to work on the cutting edge of robotics. Although I am a mechanical engineer, I enjoy working on systems that require skills in not only mechanical engineering but electrical engineering and computer science as well.

Any words of advice to incoming students?

My advice to incoming students is to find an activity besides classwork that you're passionate about. Caltech can be a very intense place, so it's important to find another outlet besides classes. If a club that you want to be a part of doesn't exist, then take the initiative to start one. At Caltech it's very easy to start a club and there are a lot of resources out there to help.

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Diversity Retreat at Caltech

In September 2013, Caltech, UC Berkeley, UCLA, and Stanford University founded a new consortium—the California Alliance for Graduate Education and the Professoriate (AGEP)—to support underrepresented minority graduate students in the STEM fields of mathematics, the physical sciences, computer science, and engineering. The Alliance, launched through a grant from the National Science Foundation, was created to address the fact that minority students enter STEM fields in disproportionately low numbers and that, as a group, their progress slows at each step in their academic careers.

This April, Caltech was host to "The Next Generation of Researchers," the Alliance's second annual retreat. The retreats are designed to bring together graduate students, postdoctoral fellows, research scientists, and faculty from the four institutions and national labs in California for mentoring and network-building opportunities.

We recently spoke with Joseph E. Shepherd (PhD '81), dean of graduate studies and the C. L. "Kelly" Johnson Professor of Aeronautics and professor of mechanical engineering, about AGEP, the recent retreat, and Caltech's diversity initiatives.


What was Caltech's motivation for entering into the California Alliance, and what has the program accomplished so far?

Caltech joined the Alliance to encourage underrepresented minorities to pursue academic careers in mathematics, physical science, computer science, and engineering fields. We seek to not only diversify our own campuses (Caltech, Berkeley, Stanford, and UCLA) but also contribute to diversity throughout the nation.

During the first year, the Alliance members identified participants at the four campuses. We have conducted two retreats—the first at Stanford University in 2014 and the second at Caltech. Graduate students, postdoctoral scholars, and faculty gathered at these retreats and learned about opportunities and challenges for underrepresented minority students transitioning from graduate studies to a career as a faculty member.

In 2014, the Alliance established a postdoctoral scholar fellowship program, accepted applications in the fall, and is in the process of finalizing awards for this coming academic year (2015–16). The Alliance has also accepted applications for the mentor-matching program through which graduate students can visit faculty at Alliance institutions to learn about opportunities and faculty careers in specific research areas.


AGEP programs are funded by the NSF. What are they hoping to achieve through these programs?

The AGEP programs were originated at NSF as a response to the recognition of the obstacles that underrepresented minority students faced in graduate education and advancing to faculty careers. These issues are highlighted in "Losing Ground," a 1998 report of a study led by Dr. Shirley Malcom, director of Education and Human Resources Programs of the American Association for the Advancement Science. Dr. Malcolm is a Caltech trustee and was a featured speaker at our 2015 retreat.


What are we doing at Caltech to support underrepresented minority students in the graduate sciences, and has anything at Caltech changed as a result of our involvement in this consortium?

The Caltech Center for Diversity has a number of programs that support various segments of our student population, and we are increasing the number of underrepresented minority postdoctoral scholars at Caltech.

In collaboration with several offices across the campus, we are developing and maintaining a strong network focused on outreach, recruitment, matriculation, and the eventual awarding of degrees to underrepresented minorities in the campus' graduate programs.  

Specifically, the Office of Graduate Studies, the Center for Diversity, and the Center for Teaching, Learning, and Outreach focus on programming that creates access to resources, builds community, and leverages relationships to help to address the challenges highlighted in the AGEP program, including facilitated discussion groups that address issues of inclusion and equality, various graduate student clubs that promote cultural awareness and community education, and an annual "Celebration of Excellence" reception to recognize student successes and the efforts of staff, faculty, and students who promote equity and inclusion on campus.

In addition, the graduate recruitment initiative coordinated by the Office of Graduate Studies works to ensure that the campus is able to recruit at underrepresented minority STEM-focused conferences and research meetings around the United States, and encourages graduate student ambassadorship and provides opportunities for underrepresented minority graduate students to network across national professional communities with similar research and academic interests.


What can we do better?

Encourage greater diversity in graduate admissions by identifying and recruiting underrepresented minority graduate students and ensuring that every student thrives at Caltech. Encourage more of the current underrepresented minority students and postdoctoral scholars at Caltech to take advantage of the professional development opportunities in the Alliance and facilitate their transition to the next stage of their academic careers. Provide more professional development opportunities for all Caltech students and postdoctoral scholars to learn about academic careers.


What was the goal of this year's annual retreat?

One goal was to promote introductions and discussion among students, postdoctoral scholars, and faculty at the Alliance schools. In addition to informal meetings between participants, we held a number of roundtables and panel discussions on topics such as knowing what to expect of grad school, the postdoctoral experience, and, in general, life as a researcher and faculty member. Our retreat highlighted the research between done by faculty, students, and postdoctoral scholars in the Alliance by holding a poster session that enabled the participants to learn about each other's research activity. The retreat participants learned about some of the exciting research being done in protein design at Caltech from the other featured speaker, Steve Mayo (PhD '88), Caltech's William K. Bowes Jr. Leadership Chair of the Division of Biology and Biological Engineering and Bren Professor of Biology and Chemistry.


Who were participants in this year's retreat, and what do you think they gained from the program?

There were a total of 111 attendees: 40 percent were faculty, 42 percent were graduate students, 8 percent postdoctoral scholars, and the remainder were staff members, including some from JPL and Sandia National Laboratory.

The participants were recruited by the Alliance leadership at each university. The student participants gained the opportunity to network with scientists and faculty at other Alliance institutions, learned about academic careers and postdoctoral scholar opportunities, and were able engage in wide-ranging discussions about careers in science. The faculty and staff participants were able to provide information and advice to students as well as learn about prospective postdoctoral scholars and faculty members.

In addition, a total of 18 faculty from Caltech participated out of a total of 43 faculty members who attended from all four Alliance universities. The faculty at Caltech are very positive about this program, and we are encouraged by the high level of participation.


Were the sessions specifically focused on the particular needs of underrepresented groups?

The focus of the Alliance is on helping young people from diverse backgrounds to consider and succeed in academic careers in science. Many of the issues that contribute to success or failure in academic science careers do not depend on the particular perspective or background of a prospective postdoctoral scholar or professor. The pathway to the professoriate and the mechanics of succeeding in an academic career are far from obvious, particularly for students with disadvantaged backgrounds as well as those who are the first in their family to obtain a college degree or consider a career in science. One of the important roles of the Alliance retreat is in providing information about the many career aspects to which our student participants are exposed early enough in their careers so that it may make a difference. 

Kathy Svitil
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Students Try Their Hand at Programming DNA

In a new class called Design and Construction of Programmable Molecular Systems (BE/CS 196a), taught this term by Assistant Professor of Bioengineering Lulu Qian, undergraduate and graduate students in computer science, computation and neural systems, and bioengineering came together to study a new intersection of their fields: biomolecular computation. "Molecular programming is a really young research field that only has a couple of decades of history," said Qian, introducing the class's final project presentations on Friday, June 5. "But it offers a huge potential for transforming all molecular sciences into information technology."

In recent years, in order to "program" synthetic DNA sequences to accomplish a diverse range of functions, bioengineers have begun to take advantage of their ability to predict how DNA strands interact, exchange their binding partners, and fold.

Over the course of 10 weeks, three student teams in BE/CS 196a had the chance to specialize in one of the possibilities afforded by this technology. Working in the wet lab—a lab where biochemical materials can be handled in test tubes of liquids—one group attempted to simulate rudimentary neural networks that recognize the presence or absence of DNA strands, each representing information about four Caltech undergrad houses. Another designed molecules to compute multistep logic functions that implement two particular "transition rules" involved in a famous conjecture concerning a theoretical model of computation called "cellular automata."

Students in the third group designed DNA "origami." In DNA origami, a technique first developed at Caltech, DNA molecules automatically fold into prescribed shapes that may contain patterns of attachment sites—like a smiley face or a miniature circuit board—based on the molecules' designated sequence.

As used by Qian's students, junior Aditya Karan, a computer science major, and first-year bioengineering graduate student James Parkin, the process begins with a single-strand loop of DNA—the genome of virus M13, which has over 7,000 nucleotides. "Staples" made of matching sequences are used to connect specific points on the loop, so that these points are pulled together, causing the loop to fold into the desired shape. The team focused their efforts on manipulating a set of microscopic square tiles of DNA. In one experiment they created complex patterns on the surface of the squares; in another they designed the tiles to form heart-shaped arrays consisting of 11 tiles of four distinct types.

Although complete control of molecular systems is a long way off, these technologies offer what is essentially a programming language capable of interfacing with a biochemical environment. DNA folding, for example, could be used to design microscopic "boxes" that open and release a therapeutic drug only under certain chemical conditions on the surface of or inside specific type of cells. "What has kind of amazed us is how much we can get done with just DNA," says Parkin. "With DNA, we can design complicated things from scratch. We can't do that with proteins yet."

As Qian notes, programming molecular systems is an area "full of imagination and creativity."

"That's why I want to share these adventures with Caltech students," she says.

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JPL News: RoboSimian Displays Rescue Skills at Robotics Challenge

RoboSimian—an ape-like robot developed by researchers at Caltech, JPL, and UC Santa Barbara—grabbed a fifth-place finish at last weekend's DARPA Robotics Challenge Finals. The 23 teams in the competition were challenged to design a robot that could perform a series of tasks that would be necessary for response during a natural or man-made disaster—tasks such as opening a door, cutting through walls, closing valves, moving debris, and even driving a vehicle.

Although the tasks were performed by the robot's hardware—designed at JPL—the robot was operated by software that included algorithms, or mathematical principles, contributed by Caltech's Joel Burdick, the Richard L. and Dorothy M. Hayman Professor of Mechanical Engineering and Bioengineering; current Caltech graduate student Krishna Shankar; and Burdick's former students Jeremy Ma (MS '05, PhD '10), Nick Hudson (MS '05 PhD '09), and Paul Hebert (MS '07, PhD '13) at JPL.

Read the full story from JPL News

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Screening Cells for a Cure

A powerful partnership leads to advances in islet-cell transplants to treat diabetes

Living with type 1 diabetes today is typically manageable thanks to advancements in medical technology. However, some patients still confront severe complications, from extreme hypoglycemia that can lead to diabetic coma to long-term effects, such as blindness, nerve damage, and kidney failure. In some cases, type 1 diabetes can be life-threatening, and in all cases, it is currently incurable.

But there is hope, fostered by a collaboration between Caltech and its neighbor in Duarte, City of Hope. Established in 2008 with a $6 million gift from an anonymous donor, the Caltech-City of Hope Biomedical Research Initiative provides seed grants to accelerate the development of basic scientific research and its translation into applications ranging from new pharmaceuticals to medical devices to treatment methods. The partnership was formalized—and further strengthened—in 2014, when the two institutions signed a memorandum of understanding, encouraging researchers to collaborate and share resources.

Leadership from Caltech and City of Hope and members of the public celebrated the partnership at a special event on May 13. More than 70 attendees gathered in Caltech's Beckman Institute Auditorium to learn about progress in fighting diabetes.

"The benefits of the deepening relationship between our two institutions emerged clearly in the evening's events," says Caltech President Thomas F. Rosenbaum, holder of the Sonja and William Davidow Presidential Chair and professor of physics. "Our increasing set of research interactions is making great strides in translating fundamental science to advance human health."

To date, the initiative has funded 28 endeavors led by teams of Caltech and City of Hope investigators—early-stage research projects that might not have moved forward if they had had to rely on traditional funding sources.

"The more we work together, the more we enable discovery," says City of Hope president and CEO Robert Stone. "Saving lives today and tomorrow—that's what this collaboration is about."

One encouraging development for people facing uncontrolled type 1 diabetes comes in the form of a simple surgery. The procedure takes healthy, functioning pancreatic islets—clusters of cells that contain insulin-producing beta cells—from an organ donor and transplants them into a patient's liver. Doctors at City of Hope have already performed the surgery on a limited number of patients and have seen promising results.

While islet transplantation eventually may lead to a cure for diabetes, challenges remain in making it practical. Once islets have been donated, for example, how can they be isolated and kept functional? How do researchers distinguish good islets from bad without wasting the good ones during testing?

Through the Caltech-City of Hope Biomedical Research Initiative, researchers and clinicians are working hand-in-hand to answer these important questions.

At the event, researchers told the story and explained the science behind their project. Fouad Kandeel, chair and professor in the Department of Clinical Diabetes, Endocrinology, and Metabolism at City of Hope, and his colleague, Kevin Ferreri, associate research professor in the Division of Developmental and Translational Diabetes and Endocrine Research, have been working on islet cell transplantation as a treatment for their patients with type 1 diabetes. Yet existing methods of selecting islets took too much time, involved too much labor, and used up too many islets.

That is where the Caltech partners came in. Yu-Chong Tai, the Anna L. Rosen Professor of Electrical Engineering and Mechanical Engineering, and Hyuck Choo, assistant professor of electrical engineering and medical engineering, invented a novel device that can screen individual islets. The microfluidic platform accurately determines the health of an islet sample by applying glucose and measuring the sample's reaction. In less than a year, the team has designed a proof-of-concept platform.

Once the device is perfected, Choo believes the team will be able to easily scale it up and even use its technology to help overcome other clinical challenges.

"This is the perfect opportunity for medical engineering at Caltech," says Choo. "We want to create technology-based solutions to large-scale societal health issues, like diabetes."

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Modernized "Open" Space for MCE

The Charles C. Gates Jr.–Franklin Thomas Laboratory, a building that will house Caltech's Department of Mechanical and Civil Engineering and the administrative offices for the Division of Engineering and Applied Science (EAS), was officially dedicated with an opening ceremony on Monday, June 1. Mechanical and Civil Engineering is one of seven departments in EAS.

The celebration, open to all members of the Caltech community, included tours of the reimagined space, laboratory demonstrations, and research poster presentations, as well as remarks from key administrative leaders and donors who were instrumental in transforming the Gates-Thomas Laboratory from the mid-twentieth century to the present.

Over the last year, the building—formerly known as the Franklin Thomas Laboratory of Engineering—was modernized with both the lab's history and the future in mind. With a nod to the past, the renovation includes the building's original iron railings as well as artistic etchings and imagery that reference prior research in earthquake engineering and hydrodynamics. Looking to the future, the energy-efficient, renovated building features state-of-the-art laboratories and experimental and computational facilities, along with open spaces where faculty, scholars, and students—including the department's roughly 70 graduate students and 100 undergraduates—can share ideas across disciplines. The upgrades, which were conducted using sustainable building practices and make Gates-Thomas Laboratory eligible for LEED Gold certification, include LED lighting, smart occupancy controls, the use of low-flow fixtures, and, in the public spaces outside, the installation of a drip-irrigation system with landscaping featuring native plants adapted to the local climate.

"These beautiful public spaces . . . the amphitheater directly behind me, which connects the Gates-Thomas Laboratory to the Sherman Fairchild Library, and the Housner Lounge at the heart of the second floor of the building . . . are hubs of activity not only for one department, but across our division and across the Institute," said Ares Rosakis, the Otis Booth Leadership Chair of EAS and the Theodore von Kármán Professor of Aeronautics and Mechanical Engineering, in remarks prior to the official ribbon-cutting ceremony.

"Caltech is a destination for people who want to fulfill their dreams—their dreams of discovery in science and engineering," President Thomas F. Rosenbaum said. "It is as Ares pointed out: Our shared culture, our belief in excellence, our belief in focus, our belief in ambition; the intimacy and intensity of work that gives us the leg up where people can see—whether they are students, faculty, or staff, trustees, friends of the Institute—can see that this is the place where those dreams can be realized.

"When we attract people here, and we tell them about this culture, when they hear and know about this culture, it goes a long way, but it's not enough," Rosenbaum added. "We also need the tools that allow them to succeed; that allow them to make those discoveries that will transform the world. And it is buildings like Gates-Thomas—the environment that has been created this way—that gives them the confidence, that gives them the ability to be able to make those discoveries."

The laboratory is named after two stewards of the Institute: Charles C. Gates Jr. (1921–2005), a businessman, philanthropist, and longtime Caltech trustee; and Franklin Thomas (1885–1952), first chair of the division that became EAS, as well as a civil engineering professor and the dean of students. The renovation was supported by the Gates Frontiers Fund through the guidance of Diane G. Wallach and John S. Gates; the Fred L. Hartley Family Foundation; James E. Hall (BS '57) and his wife, Sandy; and Li-San Hwang (PhD '65) and his wife, Anne.

"We are here today, giving to this project, because it's got a future," said Wallach, Gates's daughter. She noted how proud her father would be today to see the building and the work it will enable. "Charlie would be the first to applaud working together in hopes of reducing our dependence on shrinking public funding, innovating in the classroom, finding ways to leverage great learning and brain power, engaging industry and local communities in our efforts, and streamlining how we move ideas from labs into the marketplace. Certainly this facility behind us came together in this spirit, and I think that is what he would have been so excited to celebrate today."

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Spotlight on Graduate Research

It is no secret that Caltech's graduate students have unparalleled research opportunities. Working closely with faculty advisers and colleagues in diverse fields across campus, their contributions are essential to the Institute's advances in science, engineering, and technology. For nearly two decades, the Everhart Lecture Series has provided a venue to highlight graduate student research at Caltech.

The annual series, named after Caltech president emeritus Tom Everhart, provides three carefully selected graduate students with an opportunity to present their work to an Institute-wide audience. The series was established with the goal of "encouraging interdisciplinary interaction and helping faculty and graduate students across campus to share ideas about recent research developments, problems and controversies, and to recognize the exemplary presentation and research abilities of Caltech's graduate students."

"Having the ability to demonstrate your work to the broader community—those outside of your own scientific area—is extremely important, and too often graduate students have very little experience with this," says graduate student Constantine Sideris, the 2014–15 chair of the Everhart Lecture Series committee, an interdisciplinary committee of graduate students that selects the three graduate student lecturers from a pool of more than a dozen applicants each fall.

"This series allows them to hone their presentation and dynamic speaking skills, and also their ability to explain difficult, technical concepts to a diverse audience," Sideris says.

This year's lecturers—Carissa Eisler (chemistry and chemical engineering), Roarke Horstmeyer (electrical engineering), and Peter Rapp (chemistry and chemical engineering)—gave talks on campus earlier this spring, and all three were invited to share their work with members of the Caltech community during the Institute's annual Seminar Day event in May. This year's lectures span a range of topics, from enhancing solar-cell efficiency, to improving microscope imaging, to understanding polymers. (Complete lecture descriptions from the students as well as links to podcasts of the recorded talks on iTunes U can be found below.)

"Research is only getting more interdisciplinary, so effectively communicating your work is an essential skill," says Eisler. "The lecture was really challenging, and I was very nervous, but it was incredibly rewarding, and I'm so glad that I did it."

Eisler and her colleagues noted that participating in the lectures provided valuable learning opportunities—by forcing them to synthesize and explain their work to individuals outside of their respective fields—and helped to build campus awareness for the breadth of research that's being done by graduate students.

"I work with a team of remarkable people, and I hope the lecture communicated that my project is just one among many exciting projects in our lab," Rapp says.  


Lecture Descriptions:

Building a Brighter Future: Spectrum-Splitting as a Pathway for 50% Efficiency Solar Cells
By Carissa Eisler
Lab: Harry Atwater, Howard Hughes Professor of Applied Physics and Materials Science and director of the Resnick Sustainability Institute

Although possible, ultra-high solar-cell efficiencies (>50 percent) have not been achieved because of limitations by current fabrication methods. Spectrum-splitting modules, or architectures that employ optical elements to divide the incident spectrum into different color bands, are promising because they can convert each photon more efficiently than traditional methods. This talk discusses our design and prototyping efforts to create such a spectrum-splitting module. We explore the spectrum-splitting optics and geometric optimizations in the context of high-efficiency designs. We show a design that achieves 50 percent efficiency with realistic device losses and geometric constraints. 

Listen to the lecture on iTunesU:


Computational Microscopy: Turning Megapixels into Gigapixels
By Roarke Horstmeyer
Lab: Changhuei Yang, Professor of Electrical Engineering, Bioengineering, and Medical Engineering

Optical aberrations limit the size of current microscope images to tens of megapixels. This talk will present a method to boost a microscope's resolving power to one gigapixel using a technique termed Fourier ptychography. No moving parts or precision controls are needed for this resolution enhancement. The only required hardware is a standard microscope, which we outfit with a digital detector and an array of LEDs. An optimization algorithm does the rest of the work. Example applications of our new microscope include full-slide digital pathology imaging, wide-scale surface profile mapping of human blood, and achieving sub-wavelength resolution without needing oil immersion.

Listen to the lecture on iTunesU:


Shaking Hands in a Crowded Room: How Sticky Polymers Travel through Viscoelastic Gels
By Peter Rapp
Lab: David Tirrell, Ross McCollum-William H. Corcoran Professor of Chemistry and Chemical Engineering; Director, Beckman Institute

What if you could give a polymer hands and feet and watch it move? We have developed biological approaches to synthesizing functional materials made from proteins, nature's flagship polymers. These approaches provide a set of tools for answering fundamental questions in polymer physics and for synthesizing dynamic materials that find applications in soft-tissue engineering and regenerative medicine. This talk will explore the dynamics of a model "sticky" polymer: an artificial protein engineered with associative endblocks that self-assembles into viscoelastic hydrogels. Fluorescence relaxation studies have demonstrated that polymer diffusion in these gels is controlled by endblock exchange, a process akin to a molecular handshake. Genetic approaches to modifying the endblock architecture enable tuning of polymer mobility over a wide range.

Listen to the lecture on iTunesU:


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Amgen and Caltech Establish Partnership in Health Sciences

Caltech and Amgen have joined forces in the pursuit of foundational discoveries in the biological sciences through a multifaceted new partnership spanning research, graduate student training, and shared resources.

"The work we do is built upon the foundation of basic discoveries in biology," says Alexander Kamb (PhD '88), Amgen's senior vice president of Discovery Research. "We look forward to strengthening and extending this foundation through our connection with Caltech."

Caltech received its first gift from Amgen in 1981, just one year after the company was formed. Over the past three decades, Amgen has provided support for a variety of educational programs and investigations at Caltech. Today, Amgen has grown to be one of the world's leading independent biotechnology companies, and it has now entered into a collaborative research agreement for joint investigations with Caltech that will leverage the two institutions' strengths in discovery, and translational and clinical science.

Under the terms of the new agreement, Amgen will fund up to five research projects per year for three years. Bridging the divisions of Chemistry and Chemical Engineering, Biology and Biological Engineering, and Engineering and Applied Science, the projects will focus on large- and small-molecule drug discovery, drug-delivery devices, and diagnostic technologies. Amgen will also provide support for Amgen Graduate Student Fellows in Caltech's interdisciplinary Graduate Program in Biochemistry and Molecular Biophysics.

In addition to fellowship and research support, Amgen has chosen Caltech as its first partner to access the Amgen Biology-Enabling Resource, a searchable database comprising more than 1,000 items, including molecules, peptides, antibodies, and engineered cell lines acquired through years of discovery efforts. Amgen will have no claim to ownership of intellectual property to discoveries that may ensue. Over time, Amgen will extend access to other research institutions and, as specific materials are depleted, add others to the catalog.

This comprehensive agreement with Amgen exemplifies Caltech's commitment to building strategic partnerships to optimize the Institute's capabilities and help solve pressing problems for the benefit of the public. This and other such relationships with corporations, government agencies, non-governmental organizations, and other institutions, focus on transferring technology from Caltech's campus to industry.

"Each industry collaboration has a unique scope and focus, but all share a goal of transforming new research findings into applications that will benefit society," explains Caltech Vice Provost, Mory Gharib, the Hans W. Liepmann Professor of Aeronautics and Bioinspired Engineering. "The hope is that the Caltech–Amgen partnership will enable our teams to swiftly convert laboratory discoveries into therapeutics or devices that will improve patients' lives."

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Three Caltech Fulbrights

Caltech seniors Jonathan Liu, Charles Tschirhart, and Caroline Werlang will be engaging in research abroad as Fulbright Scholars this fall. Sponsored by the Department of State's Bureau of Educational and Cultural Affairs, the Fulbright Program was established in 1946 to honor the late Senator J. William Fulbright of Arkansas for his contributions to fostering international understanding.



Jonathan Liu is an applied physics major from Pleasanton, California, who will be doing research at Ludwig Maximilian University Munich in Germany. He plans to work with a biophysicist studying how DNA moves in a liquid with a thermal gradient, which could shed light on the molecular origins of life. Long strands of DNA should break apart well before they have time to organize themselves into the complicated arrangements needed to be self-reproducing, but previous work in the lab Liu is joining has hinted that deep-sea hydrothermal vents may have allowed long strands to form stable clusters. Liu plans to enroll at UC Berkeley for graduate study in physics at the PhD level on his return; he was awarded one of UC Berkley's Graduate Student Instructorships to support his work.

Charles Tschirhart of Naperville, Illinois, is a double major in applied physics and chemistry. He will be studying condensed matter physics at the University of Nottingham, England, where he plans to develop new ways to "photograph" nanometer-sized (billionth-of-a-meter-sized) objects using atomic force microscopy. He will then proceed to UC Santa Barbara to earn a PhD in experimental condensed matter physics. Charles has won both a Hertz fellowship and National Science Foundation Graduate Research Fellowship; both will support his PhD work at UC Santa Barbara.

Caroline Werlang, a chemical engineering student from Houston, Texas, will go to the Institute of Bioengineering at the École Polytechnique Fédérale de Lausanne in Switzerland to work on kinases, which are proteins that act as molecular "on/off" switches. She will join a lab that is trying to determine how kinases select and bind to their targets in order to initiate or block other biological processes—an important step toward designing a synthetic kinase that could activate a tumor-suppressor protein, for example. After her Fulbright, she will pursue a doctorate in biological engineering at MIT. Caroline's PhD studies will be supported by a National Science Foundation Graduate Fellowship.

The Fulbright Program is the flagship international exchange program sponsored by the U.S. government. Seniors and graduate students who compete in the U.S. Fulbright Student Program can apply to one of the more than 160 countries whose universities are willing to host Fulbright Scholars. For the academic program, which sponsors one academic year of study or research abroad after the bachelor's degree, each applicant must submit a plan of research or study, a personal essay, three academic references, and a transcript that demonstrates a record of outstanding academic work.

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Yeast Protein Network Could Provide Insights into Human Obesity

A team of biologists and a mathematician have identified and characterized a network composed of 94 proteins that work together to regulate fat storage in yeast.

"Removal of any one of the proteins results in an increase in cellular fat content, which is analogous to obesity," says study coauthor Bader Al-Anzi, a research scientist at Caltech.

The findings, detailed in the May issue of the journal PLOS Computational Biology, suggest that yeast could serve as a valuable test organism for studying human obesity.

"Many of the proteins we identified have mammalian counterparts, but detailed examinations of their role in humans has been challenging," says Al-Anzi. "The obesity research field would benefit greatly if a single-cell model organism such as yeast could be used—one that can be analyzed using easy, fast, and affordable methods."

Using genetic tools, Al-Anzi and his research assistant Patrick Arpp screened a collection of about 5,000 different mutant yeast strains and identified 94 genes that, when removed, produced yeast with increases in fat content, as measured by quantitating fat bands on thin-layer chromatography plates. Other studies have shown that such "obese" yeast cells grow more slowly than normal, an indication that in yeast as in humans, too much fat accumulation is not a good thing. "A yeast cell that uses most of its energy to synthesize fat that is not needed does so at the expense of other critical functions, and that ultimately slows down its growth and reproduction," Al-Anzi says.

When the team looked at the protein products of the genes, they discovered that those proteins are physically bonded to one another to form an extensive, highly clustered network within the cell.

Such a configuration cannot be generated through a random process, say study coauthors Sherif Gerges, a bioinformatician at Princeton University, and Noah Olsman, a graduate student in Caltech's Division of Engineering and Applied Science, who independently evaluated the details of the network. Both concluded that the network must have formed as the result of evolutionary selection.

In human-scale networks, such as the Internet, power grids, and social networks, the most influential or critical nodes are often, but not always, those that are the most highly connected.

The team wondered whether the fat-storage network exhibits this feature, and, if not, whether some other characteristics of the nodes would determine which ones were most critical. Then, they could ask if removing the genes that encode the most critical nodes would have the largest effect on fat content.

To examine this hypothesis further, Al-Anzi sought out the help of a mathematician familiar with graph theory, the branch of mathematics that considers the structure of nodes connected by edges, or pathways. "When I realized I needed help, I closed my laptop and went across campus to the mathematics department at Caltech," Al-Anzi recalls. "I walked into the only office door that was open at the time, and introduced myself."

The mathematician that Al-Anzi found that day was Christopher Ormerod, a Taussky–Todd Instructor in Mathematics at Caltech. Al-Anzi's data piqued Ormerod's curiosity. "I was especially struck by the fact that connections between the proteins in the network didn't appear to be random," says Ormerod, who is also a coauthor on the study. "I suspected there was something mathematically interesting happening in this network."

With the help of Ormerod, the team created a computer model that suggested the yeast fat network exhibits what is known as the small-world property. This is akin to a social network that contains many different local clusters of people who are linked to each other by mutual acquaintances, so that any person within the cluster can be reached via another person through a small number of steps.

This pattern is also seen in a well-known network model in graph theory, called the Watts-Strogatz model. The model was originally devised to explain the clustering phenomenon often observed in real networks, but had not previously been applied to cellular networks.

Ormerod suggested that graph theory might be used to make predictions that could be experimentally proven. For example, graph theory says that the most important nodes in the network are not necessarily the ones with the most connections, but rather those that have the most high-quality connections. In particular, nodes having many distant or circuitous connections are less important than those with more direct connections to other nodes, and, especially, direct connections to other important nodes. In mathematical jargon, these important nodes are said to have a high "centrality score."

"In network analysis, the centrality of a node serves as an indicator of its importance to the overall network," Ormerod says.

"Our work predicts that changing the proteins with the highest centrality scores will have a bigger effect on network output than average," he adds. And indeed, the researchers found that the removal of proteins with the highest predicted centrality scores produced yeast cells with a larger fat band than in yeast whose less-important proteins had been removed.

The use of centrality scores to gauge the relative importance of a protein in a cellular network is a marked departure from how proteins traditionally have been viewed and studied—that is, as lone players, whose characteristics are individually assessed. "It was a very local view of how cells functioned," Al-Anzi says. "Now we're realizing that the majority of proteins are parts of signaling networks that perform specific tasks within the cell."

Moving forward, the researchers think their technique could be applicable to protein networks that control other cellular functions—such as abnormal cell division, which can lead to cancer.

"These kinds of methods might allow researchers to determine which proteins are most important to study in order to understand diseases that arise when these functions are disrupted," says Kai Zinn, a professor of biology at Caltech and the study's senior author. "For example, defects in the control of cell growth and division can lead to cancer, and one might be able to use centrality scores to identify key proteins that regulate these processes. These might be proteins that had been overlooked in the past, and they could represent new targets for drug development."

Funding support for the paper, "Experimental and Computational Analysis of a Large Protein Network That Controls Fat Storage Reveals the Design Principles of a Signaling Network," was provided by the National Institutes of Health.

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