CT
-
Deep Learning Predicts Drug-Drug and Drug-Food Interactions
A Korean research team from KAIST developed a computational framework, DeepDDI, that accurately predicts and generates 86 types of drug-drug and drug-food interactions as outputs of human-readable sentences, which allows in-depth understanding of the drug-drug and drug-food interactions.
Drug interactions, including drug-drug interactions (DDIs) and drug-food constituent interactions (DFIs), can trigger unexpected pharmacological effects, including adverse drug events (ADEs), with causal mechanisms often unknown. However, current prediction methods do not provide sufficient details beyond the chance of DDI occurrence, or require detailed drug information often unavailable for DDI prediction.
To tackle this problem, Dr. Jae Yong Ryu, Assistant Professor Hyun Uk Kim and Distinguished Professor Sang Yup Lee, all from the Department of Chemical and Biomolecular Engineering at Korea Advanced Institute of Science and Technology (KAIST), developed a computational framework, named DeepDDI, that accurately predicts 86 DDI types for a given drug pair. The research results were published online in Proceedings of the National Academy of Sciences of the United States of America (PNAS) on April 16, 2018, which is entitled “Deep learning improves prediction of drug-drug and drug-food interactions.”
DeepDDI takes structural information and names of two drugs in pair as inputs, and predicts relevant DDI types for the input drug pair. DeepDDI uses deep neural network to predict 86 DDI types with a mean accuracy of 92.4% using the DrugBank gold standard DDI dataset covering 192,284 DDIs contributed by 191,878 drug pairs. Very importantly, DDI types predicted by DeepDDI are generated in the form of human-readable sentences as outputs, which describe changes in pharmacological effects and/or the risk of ADEs as a result of the interaction between two drugs in pair. For example, DeepDDI output sentences describing potential interactions between oxycodone (opioid pain medication) and atazanavir (antiretroviral medication) were generated as follows: “The metabolism of Oxycodone can be decreased when combined with Atazanavir”; and “The risk or severity of adverse effects can be increased when Oxycodone is combined with Atazanavir”. By doing this, DeepDDI can provide more specific information on drug interactions beyond the occurrence chance of DDIs or ADEs typically reported to date.
DeepDDI was first used to predict DDI types of 2,329,561 drug pairs from all possible combinations of 2,159 approved drugs, from which DDI types of 487,632 drug pairs were newly predicted. Also, DeepDDI can be used to suggest which drug or food to avoid during medication in order to minimize the chance of adverse drug events or optimize the drug efficacy. To this end, DeepDDI was used to suggest potential causal mechanisms for the reported ADEs of 9,284 drug pairs, and also predict alternative drug candidates for 62,707 drug pairs having negative health effects to keep only the beneficial effects. Furthermore, DeepDDI was applied to 3,288,157 drug-food constituent pairs (2,159 approved drugs and 1,523 well-characterized food constituents) to predict DFIs. The effects of 256 food constituents on pharmacological effects of interacting drugs and bioactivities of 149 food constituents were also finally predicted. All these prediction results can be useful if an individual is taking medications for a specific (chronic) disease such as hypertension or diabetes mellitus type 2.
Distinguished Professor Sang Yup Lee said, “We have developed a platform technology DeepDDI that will allow precision medicine in the era of Fourth Industrial Revolution. DeepDDI can serve to provide important information on drug prescription and dietary suggestions while taking certain drugs to maximize health benefits and ultimately help maintain a healthy life in this aging society.”
Figure 1. Overall scheme of Deep DDDI and prediction of food constituents that reduce the in vivo concentration of approved drugs
2018.04.18 View 12015 -
KAIST Develops IoT Platform for Food Safety
A research team led by the KAIST Auto-ID Labs developed a GS1 international standard-based IoTs infrastructure platform dubbed Oliot (Open Language of Internet of Things). This platform will be applied to Wanju Local Food, the nation’s largest cooperative, and will be in operation from April 5.
A total of eleven organizations participated in the development of Oliot, with KAIST as the center. This consortium is based on the GS1 international standard-based Oliot platform, which allows collecting and sharing data along the entire process of agrifood from production to processing, distribution, and consumption. It aims at increasing farm incomes and establishing a global ecosystem of domestic agriculture and stockbreeding that provides safe food.
Wanju Local Food is now the world’s first local food co-op with a traceability system from the initial stage of production planning to end sales based on GS1 international standards, which will ensure food safety.
KAIST has been sharing Oliot data in order to apply it to industries around the world. As of April 2018, approximately 900 enterprises and developers from more than 100 countries have downloaded it.
Professor Daeyoung Kim from the School of Computing, who is also Research Director of Auto-ID Labs said, “We are planning to disseminate Oliot to local food cooperatives throughout the nation. We will also cooperate with other countries, like China, Holland, and Hong Kong to create a better ecosystem for the global food industry.
“We are currently collaborating with related business to converge Oliot with AI or blockchain technology that can be applied to various services, such as healthcare and smart factories. Its tangible outcome will be revealed soon,” he added.
Auto-ID Labs are a global research consortium of six academic institutions that research and develop new technologies for advancing global commerce, partnering with GS1 (Global Standard 1), a non-profit organization that established standards for global commerce such as introducing barcodes to the retail industry. The Auto-ID Labs include MIT, University of Cambridge, Keio University, Fudan University, ETH Zurich/University of St. Gallen, and KAIST.
The consortium was supported by the Ministry of Science and ICT as well as the Institute for Information and Communications Technology Promotion for three years from 2015.
The launching of Oliot at Wanju Local Food will be held on April 5.
2018.04.03 View 9382 -
Two Professors Receive the Asan Medical Award
(Professor Ho Min Kim and Chair Profesor Eunjoon Kim (from far right)
Chair Professor Eunjoon Kim of the Department of Biological Sciences and Professor Ho Min Kim from the Graduate School of Medical Science & Engineering won the 11th Asan Medical Award in the areas of basic medicine and young medical scholar on March 21.
The Asan Medical Award has been recognizing the most distinguished scholars in the areas of basic and clinical medicines annually since 2007.
Chair Professor Kim won the 300 million KRW award in recognition of his research in the mechanism of synaptic brain dysfunction and its relation with neural diseases.
The young medical scholar’s award recognizes a promising scholar under the age of 40. Professor Kim won the award for identifying the key protein structure and molecular mechanism controlling immunocytes and neurons. He earned a 50 million KRW prize.
2018.03.26 View 9307 -
Open Online Course in Science and Technology, STAR-MOOC
Four universities specializing in science and technology, along with POSTECH and UST, teamed up to establish programs for innovation in education programs, responding to the Fourth Industrial Revolution.
KAIST held an opening ceremony for the Science & Technology Advanced Research - Massive Open Online Course (STAR-MOOC) and signed an MoU with GIST, DGIST, UNIST, POSTECH, and UST.
STAR-MOOC was launched on February 26 to provide educational service to the public. It is a joint platform where people can take courses featuring lectures from professors from universities specializing in science and technology as well as national research universities.
It offers 15 courses covering basics, majors, and electives related to science and technology developed by the STAR-MOOC committee. Students can take a variety of courses.
At the opening ceremony, KAIST President Sung-Chul Shin, DGIST President Sang Hyuk Son, UST President Kil Choo Moon, POSTECH Vice President Wankyun Chung, UNIST Vice President Jae Sung Lee, GIST Vice President of Public Affairs Pil-hwan Park came to sign the MoU for provising educational services for the public.
During the ceremony, there was also time to introduce a technical agreement with a non-profit organization founded by NAVER, the CONNECT Foundation, for its courses and platform.
Universities participating in STAR-MOOC will put effort into capacity building in response to changes driven by the Fourth Industrial Revolution.
President Shin said, “STAR-MOOC is a platform that provides science and technology courses from basics to electives and major courses. It will become a leading educational platform.”
Students can register and choose courses from the website (http://starmooc.kr).
2018.03.19 View 8728 -
The 8th KINC Fusion Research Awardees
The KAIST Institute for NanoCentury held the 8th KINC Fusion Research Award in order to encourage professors’ convergence studies and instill students’ willingness to research. The award ceremony took place in the KI Building at KAIST on March 13.
The KINC Fusion Research Award selects the most outstanding convergence studies among research undertaken last year, and awards researchers who participated in that research.
The 8th KINC Fusion Research Award went to Professor Yoon Sung Nam from the Department of Materials Science and Engineering and Professor Inkyu Park from the Department of Mechanical Engineering. Their research reported the spontaneous self-biomineralization of palladium (Pd) ions on a filamentous virus to form ligand-free Pd nanowires without reducing reagents or using additional surface stabilizers (Title: Virus-Templated Self-Mineralization of Ligand-Free Colloidal Palladium Nanostructures for High Surface Activity and Stability, Advanced Functional Materials (2017)).
Professor Hee-Tae Jung, the Director of KAIST Institute for the NanoCentury and the host of the KINC Fusion Research Award said, “Convergence will be the crucial keyword that will lead to revolutionary change. Hence, the importance of convergence study should be improved. We will put every effort into creating a research environment for increasing convergence study.
The KAIST Institute for the NanoCentury was established in June 2006 under the KAIST Institute with a mission of creating convergence study by tearing down boarders among departments and carrying out interdisciplinary joint research. Currently, approximately 90 professors from 14 departments participate the institute. It aims to become a hub of university institutes for nano-fusion research.
2018.03.19 View 12542 -
Scientist of March, Professor Hee-Seung Lee
(Professor Hee-Seung Lee)
Professor Hee-Seung Lee from the Department of Chemistry at KAIST received the ‘Science and Technology Award of the Month’ awarded by the Ministry of ICT and Science, and the National Research Foundation of Korea for March 2018.
Professor Lee has been recognized for successfully producing peptide-based molecular machines, which used to be made of metals.
The methodology can be translated into magnetotactic behavior at the macroscopic scale, which is reminiscent of magnetosomes in magnetotactic bacteria.
The team employed foldectures, self-assembled molecular architectures of β-peptide foldamers, to develop the peptide-based molecular machines that uniformly align with respect to an applied static magnetic field.
Professor Lee said, “Molecular machines are widely used in the field of medical engineering or material science; however, there were limitations for developing the machines using magnetic fields. By developing peptide-based molecular machines, we were able to develop body-friendly molecular machines.”
Every month, the Ministry of ICT and Science and the National Research Foundation of Korea award a cash prize worth 10,000,000 KRW to a scientist who has contributed to science and technology with outstanding research and development performance.
2018.03.15 View 9532 -
The 22nd Humanistic Education Opens to Daejeon Citizens
The KAIST Research Center for Humanities and Social Sciences will open up the 22nd Humanistic Education for Citizens every week from March 21 to April 25.
People can apply for this program through its website (http://hss.kaist.ac.kr), starting from March 12. Anyone living in Daejeon can participate in this program at no charge but the program is limited to 100 participants on a first-come, first-serve basis.
KAIST Humanistic Education for Citizens was established in 2012 and is held four times during a year to reinforce bonding with local citizens and enhance cultural refinement and an appreciation of literature.
With the topic ‘Are News Facts?” the seminar has invited six lecturers, including Researcher Soo Young Kim from the Institute of Communication Research, to navigate various issues that smart news users need to know in this era of massive news consumption.
The lecture is dedicated to discussing a current hot issue, the phenomenon of fake news, from various perspectives and to promote smart news consumption.
It will also help to provide an understanding of legal and policy changes regarding media production and distribution.
Professor Donghwan Ko, who is also the dean of the School of Humanities and Social Sciences said, “The lectures will provide information on various issues that people need to know more about for smart news consumption in the “infoglut” era from media, psychological, social, and legal perspectives.”
The lectures will be held every Wednesday at 3pm in the School of Humanities and Social Sciences.
2018.03.06 View 6025 -
KAIST Finds the Principle of Electric Wind in Plasma
(From left: Professor Wonho Choe and PhD Sanghoo Park)
A KAIST team identified the basic principle of electric wind in plasma. This finding will contribute to developing technology in various applications of plasma, including fluid control technology.
Professor Wonho Choe from the Department of Physics and his team identified the main principle of neutral gas flow in plasma, known as ‘electric wind’, in collaboration with Professor Se Youn Moon’s team at Chonbuk National University.
Electric wind in plasma is a well-known consequence of interactions arising from collisions between charged particles (electrons or ions) and neutral particles. It refers to the flow of neutral gas that occurs when charged particles accelerate and collide with a neutral gas.
This is a way to create air movement without mechanical movement, such as fan wings, and it is gaining interest as a next-generation technology to replace existing fans. However, there was no experimental evidence of the cause.
To identify the cause, the team used atmospheric pressure plasma. As a result, the team succeeded in identifying streamer propagation and space charge drift from electrohydrodynamic (EHD) force in a qualitative manner.
According to the team, streamer propagation has very little effect on electric wind, but space charge drift that follows streamer propagation and collapse was the main cause of electric wind.
The team also identified that electrons, instead of negatively charged ions, were key components of electric wind generation in certain plasmas.
Furthermore, electric wind with the highest speed of 4 m/s was created in a helium jet plasma, which is one fourth the speed of a typhoon. These results indicate that the study could provide basic principles to effectively control the speed of electric wind.
Professor Choe said, “These findings set a significant foundation to understand the interactions between electrons or ions and neutral particles that occur in weakly ionized plasmas, such as atmospheric pressure plasmas. This can play an important role in expanding the field of fluid-control applications using plasmas which becomes economically and commercially interest.”
This research, led by PhD Sanghoo Park, was published online in Nature Communications on January 25.
Figure 1. Plasma jet image
Figure 2. The differences in electric wind speeds and voltage pulse
2018.03.02 View 7795 -
The 2018 Commencement of KAIST at a Glance
KAIST awarded a total of 2, 736 degrees at the 2018 commencement ceremony on February 23. Among the honorees, Chairman and CEO of Samsung Electronics and Samsung Advanced Institute of Technology (SAIT) Oh-Hyun Kwon was recognized as the first alumnus honorary doctorate recipient of KAIST.
More than 5,000 family, friends, and graduates including distinguished guests of Minister of Science and ICT Young-Min Yu, the Member of National Assembly Kyung-Jin Kim, Chairman of the KAIST Board of Trustees Jang-Moo Lee, and the Chairperson of the KAIST Development Foundation Soo-Young Lee attended to celebrate the graduates. During the commencement, a total of 2,736 students earned degrees: 644 PhD degrees, 1,352 master’s degrees, and 740 bachelor’s degrees.
(Minister of Science and ICT Young-Min Yu)
(The Member of National Assembly Kyung-Jin Kim)
This year, Chairman and CEO of Samsung Electronics and SAIT Kwon shared the spotlight with many other graduates. Kwon received his Master’s degree in Electrical Engineering from KAIST in 1977 and completed his Ph.D. in Electrical Engineering from Stanford University in 1985. During his more than 33-year career at Samsung, he has made significant contribution to the development of 4M DRAM and the world’s first 64M DRAM. The success of 4M DRAM and 64 DRAM led Samsung to clinch the top position in the DRAM and NAND flash business around the world. This helped Samsung emerge as a global leader in the semiconductor industry.
(From left: Chairman and CEO of Samsung Electronics and SAIT Oh-Hyun Kwon and KAIST President Sung-Chul Shin)
During the commencement speech, Kwon and President Shin both highlighted the importance of collaboration instead of competition.
Kwon encouraged the graduates to understand others to make wonderful synergy. “When you first notice the true value of another person and interact with them, the value of the individual will be doubled and will bring about a greater impact,” he said.
Also, he stressed having a collaborative mindset by saying, “All of you here, including myself, are people who have benefited from society. We must cooperate with each other and give back to society for the vest results.”
While highlighting the core values of KAIST, creativity, challenge and caring, President Shin also emphasized collaboration with others. He said, “In the future, expertise in a single discipline will not lead to new inventions or discoveries. This highlights the importance of multidisciplinary, convergence research. The key to success lies in the acknowledgement of your peers as partners for mutual growth. Your partners will make up your weak areas and become your most important asset. May you expand your personal network by finding valuable partners not only within your laboratory and workplace, but beyond Korea.”
“Go out into the world and change it as a global shaper, global innovator, and global mover. I hope that each and every one of you will add benefits the world and your legacy will be remembered for generations to come. This is your obligation as a graduate of KAIST,” he said.
Click here to view the full text of President Sung-Chul Shin’s address to the graduates
+ List of academically outstanding undergraduate degree recipients who received honors during the Commencement 2018 of KAIST
Award
Department
Winner
Minister of Science and ICT Award
Dept. of Mathematical Sciences
Seong-Hyeok Park
KAIST Board Chairperson Award
School of Computing
Hyeong-Seok Kim
KAIST President Award
Dept. of Chemistry
Hoi-Min Cheong
KAIST Development Foundation Chairperson Award
Dept. of Biological Sciences
Gi-Song Kim
Dept. of Industrial & Systems Engineering
Seung-Hun Lee
2018.02.23 View 11671 -
KAIST, First to Win the Cube Satellite Competition
Professor Hyochoong Bang from the Department of Aerospace Engineering and his team received the Minister of Science and ICT Award at the 1st Cube Satellite Competition.
The team actually participated in the competition in 2012, but it took several years for the awarding ceremony since it took years for the satellites to be designed, produced, and launched.
The KAIST team successfully developed a cube satellite, named ‘Little Intelligent Nanosatellite of KAIST (LINK)’ and completed its launch in April 2017.
LINK (size: 20cmx10cmx10cm, weight: 2kg) mounted mass spectrometry and Langmuir probe for Earth observation. The Langmuir probe was developed by Professor Kyoung Wook Min from the Department of Physics, KAIST.
Yeerang Lim, a PhD student from the Department of Aerospace Engineering said, “I still remember the feeling that I had on the day when LINK launched into orbit and sent back signals. I hope that space exploration is not something far away but attainable for us in near future.”
2018.02.22 View 11391 -
First Female Grand Prize Awardee of Samsung Humantech
Yeunhee Huh, PhD candidate (Professor Gyu-Hyeong Cho) from the School of Electrical Engineering received the grand prize of the 24th Humantech Paper Award. She is the first female recipient of this prize since its establishment in 1994. The Humantech Paper Award is hosted by Samsung Electronics and sponsored by the Ministry of Science and ICT with JoongAng Daily Newspaper. Her paper is titled, ‘A Hybrid Structure Dual-Path Step-Down Converter with 96.2％ Peak Efficiency using 250mΩ Large-DCR Inductor’. Electronic devices require numerous chips and have a power converter to supply energy adequately. She proposed a new structure to enhance energy efficiency by combining inductors and capacitors. Enhancing energy efficiency can reduce energy loss, which prolongs battery hours and solves overheating of devices; for instance, energy loss leads to the overheating issue affecting phone chargers. This technology can be applied to various electronic devices, such as cell phones, laptops, and drones. Huh said, “Power has to go up in order to meet customers’ needs; however the overheating problem emerges during this process. This problem affects surrounding circuits and causes other issues, such as malfunctions of electronic devices. This technology may vary according to the conditions, but it can enhance energy efficiency up to 4%.”During the ceremony, about eight hundred million KRW worth cash prizes was conferred to 119 papers. KAIST (44 papers) and Gyeonggi Science High School (6 papers) received special awards given to the schools.
2018.02.12 View 9434 -
KAIST Students Invited to the BNL
Siheon Ryee and Taek Jung Kim, combined Masters and PhD students from the Department of Physics, have been invited to be visiting researchers at the Brookhaven National Laboratory (BNL).
The BNL, located in Long Island, New York, is one of the most esteemed institutes in the United States. Ryee and Kim received the invitation from the Center for Computational Design of Functional Strongly Correlated Materials and Theoretical Spectroscopy. This center was established by scholars who have been leading this field in the United States.
The two students will be participating in developing a methodology and code for calculating strongly correlated electronic materials, and a grant of 40,000 USD will be provided to each student. This amount of support is not often awarded to researchers outside of postdoctoral programs.
Moreover, they are guaranteed to continue their combined Masters and PhD program and write their dissertations under the supervision of their advisor, Professor Myung Joon Han from the Department of Physics.
Professor Han said, “I was impressed by how well-known scholars established the center in order to cooperate with each other to solve challenging problems. Also, I was surprised and happy that my students were invited to this outstanding institute.”
“I believe that doing research with leaders in their field will give valuable experience to the students. At the same time, my students will be a great help to the scholars of the institute,” he added.
2018.01.11 View 8175