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DeepTFactor Predicts Transcription Factors
A deep learning-based tool predicts transcription factors using protein sequences as inputs
A joint research team from KAIST and UCSD has developed a deep neural network named DeepTFactor that predicts transcription factors from protein sequences. DeepTFactor will serve as a useful tool for understanding the regulatory systems of organisms, accelerating the use of deep learning for solving biological problems.
A transcription factor is a protein that specifically binds to DNA sequences to control the transcription initiation. Analyzing transcriptional regulation enables the understanding of how organisms control gene expression in response to genetic or environmental changes. In this regard, finding the transcription factor of an organism is the first step in the analysis of the transcriptional regulatory system of an organism.
Previously, transcription factors have been predicted by analyzing sequence homology with already characterized transcription factors or by data-driven approaches such as machine learning. Conventional machine learning models require a rigorous feature selection process that relies on domain expertise such as calculating the physicochemical properties of molecules or analyzing the homology of biological sequences. Meanwhile, deep learning can inherently learn latent features for the specific task.
A joint research team comprised of Ph.D. candidate Gi Bae Kim and Distinguished Professor Sang Yup Lee of the Department of Chemical and Biomolecular Engineering at KAIST, and Ye Gao and Professor Bernhard O. Palsson of the Department of Biochemical Engineering at UCSD reported a deep learning-based tool for the prediction of transcription factors. Their research paper “DeepTFactor: A deep learning-based tool for the prediction of transcription factors” was published online in PNAS.
Their article reports the development of DeepTFactor, a deep learning-based tool that predicts whether a given protein sequence is a transcription factor using three parallel convolutional neural networks. The joint research team predicted 332 transcription factors of Escherichia coli K-12 MG1655 using DeepTFactor and the performance of DeepTFactor by experimentally confirming the genome-wide binding sites of three predicted transcription factors (YqhC, YiaU, and YahB).
The joint research team further used a saliency method to understand the reasoning process of DeepTFactor. The researchers confirmed that even though information on the DNA binding domains of the transcription factor was not explicitly given the training process, DeepTFactor implicitly learned and used them for prediction. Unlike previous transcription factor prediction tools that were developed only for protein sequences of specific organisms, DeepTFactor is expected to be used in the analysis of the transcription systems of all organisms at a high level of performance.
Distinguished Professor Sang Yup Lee said, “DeepTFactor can be used to discover unknown transcription factors from numerous protein sequences that have not yet been characterized. It is expected that DeepTFactor will serve as an important tool for analyzing the regulatory systems of organisms of interest.”
This work was supported by the Technology Development Program to Solve Climate Changes on Systems Metabolic Engineering for Biorefineries from the Ministry of Science and ICT through the National Research Foundation of Korea.
-Publication
Gi Bae Kim, Ye Gao, Bernhard O. Palsson, and Sang Yup Lee. DeepTFactor: A deep learning-based tool for the prediction of transcription factors. (https://doi.org/10.1073/pnas202117118)
-Profile
Distinguished Professor Sang Yup Lee
leesy@kaist.ac.kr
Metabolic &Biomolecular Engineering National Research Laboratory
http://mbel.kaist.ac.kr
Department of Chemical and Biomolecular Engineering
KAIST
2021.01.05 View 9298 -
KAIST and Google Partner to Develop AI Curriculum
Two KAIST professors, Hyun Wook Ka from the School of Transdisciplinary Studies and Young Jae Jang from the Department of Industrial and Systems Engineering, were recipients of Google Education Grants that will support the development of new AI courses integrating the latest industrial technology. This collaboration is part of the KAIST-Google Partnership, which was established in July 2019 with the goal of nurturing AI talent at KAIST.
The two proposals -- Professor Ka’s ‘Cloud AI-Empowered Multimodal Data Analysis for Human Affect Detection and Recognition’ and Professor Jang’s ‘Learning Smart Factory with AI’-- were selected by the KAIST Graduate School of AI through a school-wide competition held in July. The proposals then went through a final review by Google and were accepted. The two professors will receive $7,500 each for developing AI courses using Google technology for one year.
Professor Ka’s curriculum aims to provide a rich learning experience for students by providing basic knowledge on data science and AI and helping them obtain better problem solving and application skills using practical and interdisciplinary data science and AI technology.
Professor Jang’s curriculum is designed to solve real-world manufacturing problems using AI and it will be field-oriented. Professor Jang has been managing three industry-academic collaboration centers in manufacturing and smart factories within KAIST and plans to develop his courses to go beyond theory and be centered on case studies for solving real-world manufacturing problems using AI.
Professor Jang said, “Data is at the core of smart factories and AI education, but there is often not enough of it for the education to be effective. The KAIST Advanced Manufacturing Laboratory has a testbed for directly acquiring data generated from real semiconductor automation equipment, analyzing it, and applying algorithms, which enables truly effective smart factory and AI education.”
KAIST signed a partnership with Google in July 2019 to foster global AI talent and is operating various programs to train AI experts and support excellent AI research for two years.
The Google AI Focused Research Award supports world-class faculty performing cutting-edge research and was previously awarded to professors Sung Ju Hwang from the Graduate School of AI and Steven Whang from the School of Electrical Engineering along with Google Cloud Platform (GCP) credits. These two professors have been collaborating with Google teams since October 2018 and recently extended their projects to continue through 2021.
In addition, a Google Ph.D. Fellowship was awarded to Taesik Gong from the School of Computing in October this year, and three Student Travel Grants were awarded to Sejun Park from the School of Electrical Engineering, Chulhyung Lee from the Department of Mathematical Sciences, and Sangyun Lee from the School of Computing earlier in March. Five students were also recommended for the Google Internship program in March.
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2020.12.11 View 11732 -
Experts to Help Asia Navigate the Post-COVID-19 and 4IR Eras
Risk Quotient 2020, an international conference co-hosted by KAIST and the National University of Singapore (NUS), will bring together world-leading experts from academia and industry to help Asia navigate the post-COVID-19 and Fourth Industrial Revolution (4IR) eras.
The online conference will be held on October 29 from 10 a.m. Korean time under the theme “COVID-19 Pandemic and A Brave New World”. It will be streamed live on YouTube at https://www.youtube.com/c/KAISTofficial and https://www.youtube.com/user/NUScast.
The Korea Policy Center for the Fourth Industrial Revolution (KPC4IR) at KAIST organized this conference in collaboration with the Lloyd's Register Foundation Institute for the Public Understanding of Risk (IPUR) at NUS.
During the conference, global leaders will examine the socioeconomic impacts of the COVID-19 pandemic on areas including digital innovation, education, the workforce, and the economy. They will then highlight digital and 4IR technologies that could be utilized to effectively mitigate the risks and challenges associated with the pandemic, while harnessing the opportunities that these socioeconomic effects may present. Their discussions will mainly focus on the Asian region.
In his opening remarks, KAIST President Sung-Chul Shin will express his appreciation for the Asian populations’ greater trust in and compliance with their governments, which have given the continent a leg up against the coronavirus. He will then emphasize that by working together through the exchange of ideas and global collaboration, we will be able to shape ‘a brave new world’ to better humanity. Welcoming remarks by Prof. Sang Yup Lee (Dean, KAIST Institutes) and Prof. Tze Yun Leong (Director, AI Technology at AI Singapore) will follow.
For the keynote speech, Prof. Lan Xue (Dean, Schwarzman College, Tsinghua University) will share China’s response to COVID-19 and lessons for crisis management. Prof. Danny Quah (Dean, Lee Kuan Yew School of Public Policy, NUS) will present possible ways to overcome these difficult times. Dr. Kak-Soo Shin (Senior Advisor, Shin & Kim LLC, Former Ambassador to the State of Israel and Japan, and Former First and Second Vice Minister of the Ministry of Foreign Affairs of the Republic of Korea) will stress the importance of the international community’s solidarity to ensure peace, prosperity, and safety in this new era.
Panel Session I will address the impact of COVID-19 on digital innovation. Dr. Carol Soon (Senior Research Fellow, Institute of Policy Studies, NUS) will present her interpretation of recent technological developments as both opportunities for our society as a whole and challenges for vulnerable groups such as low-income families. Dr. Christopher SungWook Chang (Managing Director, Kakao Mobility) will show how changes in mobility usage patterns can be captured by Kakao Mobility’s big data analysis. He will illustrate how the data can be used to interpret citizen’s behaviors and how risks can be transformed into opportunities by utilizing technology. Mr. Steve Ledzian’s (Vice President, Chief Technology Officer, FireEye) talk will discuss the dangers caused by threat actors and other cyber risk implications of COVID-19. Dr. June Sung Park (Chairman, Korea Software Technology Association (KOSTA)) will share how COVID-19 has accelerated digital transformations across all industries and why software education should be reformed to improve Korea’s competitiveness.
Panel Session II will examine the impact on education and the workforce. Dr. Sang-Jin Ban (President, Korean Educational Development Institute (KEDI)) will explain Korea’s educational response to the pandemic and the concept of “blended learning” as a new paradigm, and present both positive and negative impacts of online education on students’ learning experiences. Prof. Reuben Ng (Professor, Lee Kuan Yew School of Public Policy, NUS) will present on graduate underemployment, which seems to have worsened during COVID-19. Dr. Michael Fung’s presentation (Deputy Chief Executive (Industry), SkillsFuture SG) will introduce the promotion of lifelong learning in Singapore through a new national initiative known as the ‘SkillsFuture Movement’. This movement serves as an example of a national response to disruptions in the job market and the pace of skills obsolescence triggered by AI and COVID-19.
Panel Session III will touch on technology leadership and Asia’s digital economy and society. Prof. Naubahar Sharif (Professor, Division of Social Science and Division of Public Policy, Hong Kong University of Science and Technology (HKUST)) will share his views on the potential of China in taking over global technological leadership based on its massive domestic market, its government support, and the globalization process. Prof. Yee Kuang Heng (Professor, Graduate School of Public Policy, University of Tokyo) will illustrate how different legal and political needs in China and Japan have shaped the ways technologies have been deployed in responding to COVID-19. Dr. Hayun Kang (Head, International Cooperation Research Division, Korea Information Society Development Institute (KISDI)) will explain Korea’s relative success containing the pandemic compared to other countries, and how policy leaders and institutions that embrace digital technologies in the pursuit of public welfare objectives can produce positive outcomes while minimizing the side effects.
Prof. Kyung Ryul Park (Graduate School of Science and Technology Policy, KAIST) will be hosting the entire conference, whereas Prof. Alice Hae Yun Oh (Director, MARS Artificial Intelligence Research Center, KAIST), Prof. Wonjoon Kim (Dean, Graduate School of Innovation and Technology Management, College of Business, KAIST), Prof. Youngsun Kwon (Dean, KAIST Academy), and Prof. Taejun Lee (Korea Development Institute (KDI) School of Public Policy and Management) are to chair discussions with the keynote speakers and panelists.
Closing remarks will be delivered by Prof. Chan Ghee Koh (Director, NUS IPUR), Prof. So Young Kim (Director, KAIST KPC4IR), and Prof. Joungho Kim (Director, KAIST Global Strategy Institute (GSI)).
“This conference is expected to serve as a springboard to help Asian countries recover from global crises such as the COVID-19 pandemic through active cooperation and joint engagement among scholars, experts, and policymakers,” according to Director So Young Kim.
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2020.10.22 View 14078 -
Taesik Gong Named Google PhD Fellow
PhD candidate Taesik Gong from the School of Computing was named a 2020 Google PhD Fellow in the field of machine learning.
The Google PhD Fellowship Program has recognized and supported outstanding graduate students in computer science and related fields since 2009. Gong is one of two Korean students chosen as the recipients of Google Fellowships this year. A total of 53 students across the world in 12 fields were awarded this fellowship.
Gong’s research on condition-independent mobile sensing powered by machine learning earned him this year’s fellowship. He has published and presented his work through many conferences including ACM SenSys and ACM UbiComp, and has worked at Microsoft Research Asia and Nokia Bell Labs as a research intern. Gong was also the winner of the NAVER PhD Fellowship Award in 2018.
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2020.10.15 View 10906 -
Professor Won-Ki Cho Selected as the 2020 SUHF Young Investigator
Professor Won-Ki Cho from the Department of Biological Sciences was named one of three recipients of the 2020 Suh Kyung-Bae Science Foundation (SUHF) Young Investigator Award.
The SUHF is a non-profit organization established in 2016 and funded by a personal donation of 300 billion KRW in shares from Chairman and CEO Kyung-Bae Suh of the Amorepacific Group. The primary purpose of the foundation is to serve as a platform to nurture and provide comprehensive long-term support for creative and passionate young Korean scientists committed to pursuing research in the field of life sciences. The SUHF selects three to five scientists through an open recruiting process every year and grants each scientist a maximum of 2.5 billion KRW over a period of up to five years.
Since January this year, the foundation received 67 research proposals from scientists across the nation, especially from those who had less than five years of experience as professors, and selected the three recipients.
Professor Cho proposed research on how to observe the interactions between nuclear structures and constantly-changing chromatin monomers in four dimensions through ultra-high-resolution imaging of single living cells. This proposal was recognized as one that could help us better understand the process of transcription regulation, which remains a long-standing question in biology.
The other awards were given to Professor Soung-hun Roh of Seoul National University and Professor Joo-Hyeon Lee of the University of Cambridge.
With these three new awardees, a total of 17 scientists have been named SUHF Young Investigators to date, and the funding to support these scientists now totals 42.5 billion KRW.
Professor Inkyung Jung and Professor Ki-Jun Yoon from the Department of Biological Sciences, and Professor Young Seok Ju and Professor Jeong Ho Lee from the Graduate School of Medical Science and Engineering are the four previous winners from KAIST in the years 2017 through 2019.
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2020.10.15 View 12739 -
KAIST Technology Value Tops in Commercialization Market
KAIST became the first Korean university to achieve 10.183 billion KRW in annual technology royalties, and was also selected as an ‘Institution of Outstanding Patent Quality Management’ and an ‘Institution of Outstanding Public Patent Technology Transfer’ for 2020.
KAIST earns its technology royalties through 56 technology transfer contracts. Following KAIST in the rankings were Seoul National University (SNU) in second place with 8.8 billion KRW from 87 contracts and Korea University (KU) in the third with 5.4 billion KRW from 133 contracts. The data shows the high value of KAIST-created technology in the market.
The Korean Intellectual Property Office (KIPO) started to recognize the Institution of Outstanding Patent Quality Management this year to encourage profit-driven patent management at universities and public research institutes, and KAIST was selected as one of the four first recipients of this distinction.
In addition, KAIST was selected as an Institution of Outstanding Public Patent Technology Transfer, a title given by KIPO to three universities and public research institutes this year with outstanding achievements in technology transfers and commercialization to encourage patent utilization.
Director of the KAIST Institute of Technology Value Creation (ITVC) Professor Kyung-cheol Choi said that KAIST’s achievement in annual technology royalties and technology transfers and commercialization were prime examples of accelerating competitiveness in intellectual property through innovative R&D investment.
In April, KAIST expanded and reorganized its Industry-Academia Collaboration Team into the ITVC to support technology transfers and commercialization. Specialized organizations such as the Intellectual Property and Technology Transfer Center and Industrial Liaison Center have been established under the ITVC, and industry experts have been recruited as special professors focusing on industry-academia collaborations to enhance its specialized functions.
KAIST also operates an enterprise membership system and technology consulting system, aimed at sharing its outstanding intellectual property within domestic industries. In 2019, it secured a technology transfer commercialization fund of 1.2 billion KRW available for three years under KIPO’s Intellectual Property Profit Reinvestment Support Program (formerly the Korean Patent Gap Fund Creation Project).
This program was introduced to bridge the gap between the technology developed in universities and the level of technology required by industry. Under the program, bold investments are made in early-stage technologies at the research paper or experiment phase.
The program encourages enterprises to take active steps for the transfer of technologies by demonstrating their commercial potential through prototype production, testing and certification, and standard patent filing. KAIST is currently funding approximately 20 new technologies under this program as of July 2020.
KAIST’s outstanding intellectual property management has also received international recognition, with its selection as Asia’s leading institution in university R&D intellectual property at the Intellectual Property Business Congress (IPBC) Asia 2019 held in Tokyo, Japan last October.
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2020.08.18 View 9775 -
Professor Alice Haeyun Oh to Join GPAI Expert Group
Professor Alice Haeyun Oh will participate in the Global Partnership on Artificial Intelligence (GPAI), an international and multi-stakeholder initiative hosted by the OECD to guide the responsible development and use of AI. In collaboration with partners and international organizations, GPAI will bring together leading experts from industry, civil society, government, and academia.
The Korean Ministry of Science and ICT (MSIT) officially announced that South Korea will take part in GPAI as one of the 15 founding members that include Canada, France, Japan, and the United States.
Professor Oh has been appointed as a new member of the Responsible AI Committee, one of the four committees that GPAI established along with the Data Governance Committee, Future of Work Committee, and Innovation and Commercialization Committee.
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2020.06.22 View 8191 -
The 10th KINC Fusion Research Awardees
The KAIST Institute for NanoCentury (KINC) recognized three distinguished researchers whose convergence studies made significant impacts. The KINC presented the 10th KINC Fusion Research Awards during a ceremony that took place at KAIST’s main campus in Daejeon on May 19.
This year’s ‘best’ convergence research award went to a joint research group led by Professor Hee Tak Kim from the Department of Chemical and Biomolecular Engineering and Professor Sang Ouk Kim from the Department of Materials Science and Engineering. Their research, featured in the December 27 issue of Advanced Materials as a front cover article last year, introduced the world’s first high-energy efficiency, membraneless, flowless, zinc-bromine battery. This study, in which research professor Gyoung Hwa Jeong, postdoctoral researcher Yearin Byun, and PhD candidate Ju-Hyuck Lee took part as co-lead authors, is deemed as an example of a best practice in convergence research in which two groups’ respective expertise in the fields of carbon materials and electrochemical analysis created a synergistic effect.
Professor Bumjoon Kim from the Department of Chemical and Biomolecular Engineering was also recognized for having published the most interdisciplinary research papers on polymer electronics and nanomaterials at home and abroad.
Professor Hee-Tae Jung, the Director of KINC and the host of the KINC Fusion Research Awards, said, “The KINC is happy to announce the 10th awardees in nano-fusion research this year. Since convergence is crucial for making revolutionary changes, the importance of convergence studies should be recognized. Our institute will spare no effort to create a research environment suitable for convergence studies, which will be crucial for making a significant difference.”
The KINC was established in June 2006 under the KAIST Institute with the mission of facilitating convergence studies by tearing down boarders among departments and carrying out interdisciplinary joint research. Currently, the institute is comprised of approximately 90 professors from 13 departments. It aims to become a hub of university institutes for nano-fusion research.
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2020.05.19 View 13569 -
Dr. Dong-Hyun Cho at KARI Receives the 16th Jeong Hun Cho Award
Dr. Dong-Hyun Cho, a senior researcher at the Korea Aerospace Research Institute (KARI), was honored as the recipient of the 16th Jeong Hun Cho Award. The award recognizes young scientists in the field of aerospace engineering.
Dr. Cho earned his MS and PhD degrees from the KAIST Department of Aerospace Engineering in 2012, and served as a researcher at the Satellite Technology Research Center (SaTReC) at KAIST, before joining the Future Convergence Research Division at KARI. He won this year’s award and received 25 million KRW in prize money.
Jeong Hun Cho, who was a PhD candidate in the Department of Aerospace Engineering at KAIST, passed away in a tragic lab accident in May 2003 and was awarded an honorary doctorate posthumously. His family endowed the award and scholarship in his memory. Since 2005, the scholarship has selected three young scholars every year who specialize in aerospace engineering from Cho’s alma maters of KAIST, Korea University, and Kongju National University High School.
Dr. Dong-Hyun Cho was selected as this year’s awardee in recognition of his studies on the development and operation of KARISMA, a comprehensive software package for space debris collision risk management. Dr. Cho built a terrestrial testbed and produced a model for the development of a space debris elimination algorithm. He published six papers in SCI-level journals and wrote 35 symposium papers in the field of space development. He also applied or registered approximately 40 patents both in Korea and internationally.
The Award Committee also selected three students as scholarship recipients: PhD candidate Yongtae Yun from the Department of Aerospace Engineering at KAIST received 4 million KRW, MS-PhD candidate Haun-Min Lee from the School of Mechanical Engineering at Korea University received 4 million KRW, and Seonju Yim from Kongju National University High School received 3 million KRW.
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2020.05.13 View 10475 -
Breastfeeding Helps Prevent Mothers from Developing Diabetes after Childbirth
A team of South Korean researchers found that lactation can lower the incidence and reduce the risk of maternal postpartum diabetes. The researchers identified that lactation increases the mass and function of pancreatic beta cells through serotonin production. The team suggested that sustained improvements in pancreatic beta cells, which can last for years even after the cessation of lactation, improve mothers’ metabolic health in addition to providing health benefits for infants.
Pregnancy imposes a substantial metabolic burden on women through weight gain and increased insulin resistance. Various other factors, including a history of gestational diabetes, maternal age, and obesity, further affect women’s risk of progressing to diabetes after delivery, and the risk of postpartum diabetes increases more in women who have had gestational diabetes and/or repeated deliveries.
Diabetes-related complications include damage to blood vessels, which can lead to cardiovascular and cerebrovascular diseases such as heart attack and stroke, and problems with the nerves, eyes, kidneys, and many more. Since diabetes can pose a serious threat to mothers’ metabolic health, the management of maternal metabolic risk factors is important, especially in the peripartum period. Previous epidemiological studies have reported that lactation reduces the risk of postpartum diabetes, but the mechanisms underlying this benefit have remained elusive.
The study, published in Science Translational Medicine on April 29, explains the biology underpinning this observation on the beneficial effects of lactation. Professor Hail Kim from the Graduate School of Medical Science and Engineering at KAIST led and jointly conducted the study in conjunction with researchers from the Seoul National University Bundang Hospital (SNUBH) and Chungnam National University (CNU) in Korea, and the University of California, San Francisco (UCSF) in the US.
In their study, the team observed that the milk-secreting hormone ‘prolactin’ in lactating mothers not only promotes milk production, but also plays a major role in stimulating insulin-secreting pancreatic beta cells that regulate blood glucose in the body.
The researchers also found that ‘serotonin’, known as a chemical that contributes to wellbeing and happiness, is produced in pancreatic beta cells during lactation. Serotonin in pancreatic beta cells act as an antioxidant and reduce oxidative stress, making mothers’ beta cells healthier. Serotonin also induces the proliferation of beta cells, thereby increasing the beta cell mass and helping maintain proper glucose levels.
The research team conducted follow-up examinations on a total of 174 postpartum women, 85 lactated and 99 non-lactated, at two months postpartum and annually thereafter for at least three years. The results demonstrated that mothers who had undergone lactation improved pancreatic beta cell mass and function, and showed improved glucose homeostasis with approximately 20mg/dL lower glucose levels, thereby reducing the risk of postpartum diabetes in women. Surprisingly, this beneficial effect was maintained after the cessation of lactation, for more than three years after delivery.
Professor Kim said, “We are happy to prove that lactation benefits female metabolic health by improving beta cell mass and function as well as glycemic control.”
“Our future studies on the modulation of the molecular serotonergic pathway in accordance with the management of maternal metabolic risk factors may lead to new therapeutics to help prevent mothers from developing metabolic disorders,” he added.
This work was supported by grants from the National Research Foundation (NRF) and the National Research Council of Science and Technology (NST) of Korea, the National Institutes of Health (NIH), the Larry L. Hillblom Foundation, and the Health Fellowship Foundation.
Image credit: Professor Hail Kim, KAIST
Image usage restrictions: News organizations may use or redistribute this image, with proper attribution, as part of news coverage of this paper only.
Publication:
Moon, J. H et al. (2020) ‘Lactation improves pancreatic β cell mass and function through serotonin production.’ Science Translational Medicine, 12, eaay0455. Available online at https://doi.org/10.1126/scitranslmed.aay0455
Profile: Hail Kim, MD, PhD
hailkim@kaist.edu
Associate Professor
Graduate School of Medical Science and Engineering (GSMSE)
Korea Advanced Institute of Science and Technology (KAIST)
Profile: Hak Chul Jang, MD, PhD
janghak@snu.ac.kr
Professor
Division of Endocrinology and Metabolism
Seoul National University Bundang Hospital (SNUBH)
President
Korean Diabetes Association
Profile: Joon Ho Moon, MD, PhD
moonjoonho@gmail.com
Clinical Fellow
Division of Endocrinology and Metabolism
SNUBH
Profile: Hyeongseok Kim, MD, PhD
hskim85kor@gmail.com
Assistant Professor
Chungnam National University (CNU)
Profile: Professor Michael S. German, MD
Michael.German@ucsf.edu
Professor
Diabetes Center
University of California, San Francisco (UCSF)
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2020.04.29 View 18530 -
Long Economic Depressions and Disparities Loom in the Wake of the COVID-19
"Global Cooperation for Managing Data Key to Mitigating the Impacts Around the World"
<Full recorded video of the GSI-IF2020>
The COVID-19 pandemic will lead to long economic depressions around the entire world. Experts predicted that the prevalent inequities among the countries, regions, and individuals will aggravate the economic crisis. However, crises always come with new opportunities and international cooperation and solidarity will help creating a new normal in the post-coronavirus era.
In a very basic but urgent step, global cooperation for managing data is the key to respond to COVID-19 since medicine and healthcare are intertwined with data science, said experts during an online international forum hosted by the Global Strategy Institute at KAIST on April 22.
KAIST launched its think-tank, the Global Strategy Institute (GSI), in February. The GSI aims to identify global issues proactively and help make breakthroughs well aligned with solid science-based policies.
The inaugural forum of the GSI focused on how the COVID-19 pandemic would impact socio-economic, scientific, and political landscapes, under the theme “Global Cooperation in the Coronavirus Era.”
In his opening remarks, KAIST President Sung-Chul Shin stressed that future global governance will be dominated by the power of science and technology. “If we can implement efficient policies together with troubleshooting technology for responding to future crises, we will emerge stronger than before,” he said.
President Shin said ‘the Korean model’, which is being recognized as a shining example for dealing with the pandemic, is the result of collaborations combining the creativity of the private sector, the public sector’s strong infrastructure, and the full support of the citizens. He added, “Without the technological prowess coming from the competent R&D power of Korea, we could not achieve these impressive results.”
“Creative collaboration among the private and public sectors, along with research universities from around the world, will help shore up global resilience against the epidemic. We should work together to build a world of growing prosperity,” President Shin said.
Prime Minister Sye-Kyun Chung, who is in charge of the Central Disaster and Safety Countermeasures Headquarters in Korea, stressed global solidarity in his welcoming remarks, saying that “We need to share information and rely on the strength of our connections, rather than retreating into nationalistic isolation.”
Peter Lee, Vice President of the Microsoft Healthcare, pointed out in his welcoming remarks three critical sectors for global cooperation: medicine and healthcare, public health and prevention, and life and the economy. He emphasized the rule of thumb for managing data, saying that data in these fields should be open, standardized, and shared among countries to combat this global pandemic.
During a keynote session, Director General of the International Vaccine Institute (IVI) Jerome Kim described the challenges that go along with developing a vaccine. Dr. Kim said that only 7% of vaccine candidates go through the clinical trial stages, and it will take five to 10 years to completely prove a new vaccine’s safety after completing three stages of clinical tests.
“It’s very challenging to develop the vaccine for COVID-19 within 12 to 15 months,” said Dr. Kim. He added that 78 out of 115 candidates are currently undergoing clinical trials around the world.
There are five groups, including Moderna, Inovio, Jenner Institute, CanSino, and the Beijing Institute of Biological Products, who are doing clinical trials in phases 1 and 2. “Given the fact that COVID-19 is a totally new type of virus, various stakeholders’ participation, such as the National Immunization Technical Advisory Groups, the WHO, and UNICEF, is needed to work together to benefit the entire world,” he pointed out.
Professor Edward Yoonjae Choi from the Graduate School of AI at KAIST shared how AI and data sciences are being utilized to interpret the major trends of the epidemic. His group mainly focuses on deep learning to model electronic health records (EHR) for disease predictions. Professor Choi said AI and machine learning would be crucial solutions and collaborative research projects will surely accelerate how quickly we can overcome the pandemic.
In addition, Dr. Kijung Shin’s group is interpreting the SIR (Susceptible, Infected, and Recovered) model in Korea to predict the number of infections and when people were infected. However, researchers noticed that they could not see the typical modeling in Korea for predicting the number of infections since the model disregarded the new variable of humans’ efforts to stop the spread the virus.
According to research by Professor Steven Whang’s group on social distancing and face mask distribution among vulnerable age groups, people in their 20s, 60s, and 70s followed the social distancing guidelines the most strictly. The research team analyzed the data provided by SK Telecom in the Gangnam district of Seoul. The data provided on people in their 70s, a group that accounted for half of all fatalities, showed that masks were generally well distributed nationwide.
Dr. Alexandros Papaspyrids, Tertiary Education Industry Director of the Asia region of Microsoft, said that despite all the disadvantages and problems related to remote education, we shouldn’t expect to return to the days before the COVID-19 any time soon. “We should accept the new normal and explore new opportunities in the new educational environment,” he said.
Hongtaek Yong, Deputy Minister at the Office of R&D Policy at the Ministry of Science and ICT presented the Korean government’s disease prevention and response policy and how they tried to mitigate the economic and social impact.
He stressed the government’s fast testing, tracing, and openness for successfully flattening the curve, adding that the government used an ICT-based approach in all aspects of their response. From early this year when the first patient was reported, the government aggressively encouraged the biotech industry to develop diagnostic kits and novel therapeutic medications.
As a result, five companies were able to produce genetic diagnostic reagents through the emergency approval. More notably, four of them are conducting massive R&D projects sponsored by the government and this is the result of the government’s continuous investment in R&D. Korea is the leader in R&D investment among the OECD countries.
According to Yong, the government’s big data project that was launched in 2017 continuously traces the trends of epidemics in Korea. The epidemiological studies based on the paths taken by suspected patients using credit card transaction made the difference in predicting the spread of the coronavirus and implementing countermeasures. The data has been provided to the Korea’s Center for Disease Control (CDC).
“In addition to the epidemics, we have so many other pending issues arising from digital and social equities, un-contact services, and job security. We are very open to collaborate and cooperate with other countries to deal with this global crisis,” Yong said.
During the subsequent panel discussions, David Dollar, a senior fellow at the Brookings Institution, said, “The global economy in the coronavirus era will not have a rapid V-shaped recovery, but rather will fall into a long depression for at least two years.” He pointed out that if countries practice protectionism like they did during the Great Depression, the recession will be even worse. Hence, he urged the international community, especially developed nations, to avoid protectionism, consider the economic difficulties of developing countries, and provide them with financial support.
Co-Director of the Center for Universal Education at the Brookings Institution Rebecca Winthrop raised concerns over the recent shift to online teaching and learning, claiming that insufficient infrastructures in low-income families in developing nations are already causing added educational disparities and provoking the inequity issue around the world. “The ways to provide quality education equally through faster and more effective means should be studied,” she said.
Professor Joungho Kim, the director of the KAIST GSI and the forum’s organizer, concluded the event by saying that this forum will be a valuable resource for everyone who is providing assistance to those in need, both during and after the COVID-19 pandemic.
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2020.04.22 View 20844 -
Professor Hojong Chang’s Research Team Wins ISIITA 2020 Best Paper Award
The paper written by Professor Hojong Chang’s research team from KAIST Institute for IT Convergence won the best paper award from the International Symposium on Innovation in Information Technology Application (ISIITA) 2020, held this month at Ton Duc Thang University in Vietnam.
ISIITA is a networking symposium where leading researchers from various fields including information and communications, biotechnology, and computer systems come together and share on the convergence of technology.
Professor Chang’s team won the best paper award at this year’s symposium with its paper, “A Study of Single Photon Counting System for Quantitative Analysis of Luminescence”. The awarded paper discusses the realization of a signal processing system for silicon photomultipliers.
The silicon photomultiplier is the core of a urinalysis technique that tests for sodium and potassium in the body using simple chemical reactions. If our bodily sodium and potassium levels exceed a certain amount, it can lead to high blood pressure, cardiovascular problems, and kidney damage.
Through this research, the team has developed a core technique that quantifies the sodium and potassium discharged in the urine. When the reagent is injected into the urine, a very small amount of light is emitted as a result of the chemical reaction. However, if there is a large amount of sodium and potassium, they interrupt the reaction and reduce the emission. The key to this measurement technique is digitizing the strength of this very fine emission of light. Professor Chang’s team developed a system that uses a photomultiplier to measure the chemiluminescence.
Professor Chang said, “I look forward for this signal processing system greatly helping to prevent diseases caused by the excessive consumption of sodium and potassium through quick and easy detection.”
Researcher Byunghun Han who carried out the central research for the system design added, “We are planning to focus on miniaturizing the developed technique, so that anyone can carry our device around like a cellphone.”
The research was supported by the Ministry of Science and ICT.
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2020.02.27 View 9950