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Dmitry Zubarev

dblp:213/1808 · also Dmitry Yu. Zubarev · DBLP profile ↗
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5ranked-venue papers
0as first author
1since 2021 · last 2024
0000-0001-7961-3149ORCID · corroborated

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 3Databases, data management, data science and information retrieval · 3Systems, architecture and hardware · 1 · 1 since 2021Theory of computation · 1Applied, interdisciplinary, general and emerging computing · 1

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Computational science and engineering · 100%
Artificial intelligence
1 paper
Generative modeling · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Machine learning › Generative modeling › molecular generation
molecular graph generation
0.412020
Molecular Inverse-Design Platform for Material Industries · KDD 2020
Computational science and engineering › materials informatics
inverse molecular design
0.412020
Molecular Inverse-Design Platform for Material Industries · KDD 2020
Computational science and engineering › materials science
materials discovery
0.412020
Molecular Inverse-Design Platform for Material Industries · KDD 2020

Methods — techniques the papers use, named apart from their topics

substructure-based feature encoding · 0.9graph generation · 0.9
YearPublicationVenuePosition
2024 Quantum-centric supercomputing for materials science: A perspective on challenges and future directions
Yuri Alexeev, Maximilian Amsler, Marco Antonio Barroca, Sanzio Bassini, Torey Battelle, Daan Camps, David Casanova, Young Jay Choi, Fred Chong, Charles Chung, Christopher Codella, Antonio D. Córcoles, James Cruise, Alberto Di Meglio, Ivan Duran, Thomas Eckl, Sophia E. Economou, Stephan J. Eidenbenz, Bruce Elmegreen, Clyde Fare, Ismael Faro, Cristina Sanz Fernández, Rodrigo Neumann Barros Ferreira, Keisuke Fuji, Bryce Fuller, Laura Gagliardi, Giulia Galli, Jennifer R. Glick, Isacco Gobbi, Pranav Gokhale, Salvador de la Puente Gonzalez, Johannes Greiner, William Gropp, Michele Grossi, Emanuel Gull, Burns Healy, Matthew R. Hermes, Benchen Huang, Travis S. Humble, Nobuyasu Ito, Artur F. Izmaylov, Ali Javadi-Abhari, Douglas M. Jennewein, Shantenu Jha, Bert de Jong, Petar Jurcevic, William M. Kirby, Stefan Kister, Masahiro Kitagawa, Joel Klassen, Katherine Klymko, Kwangwon Koh, Masaaki Kondo, Doga Murat Kürkçüoglu, Krzysztof Kurowski, Teodoro Laino, Ryan Landfield, Matthew L. Leininger, Vicente Leyton-Ortega, Ang Li 0006, Meifeng Lin, Junyu Liu, Nicolás Lorente, André Luckow, Simon Martiel, Francisco Martín-Fernández, Margaret Martonosi, Claire Marvinney, Arcesio Castañeda Medina, Dirk Merten, Antonio Mezzacapo, Kristel Michielsen, Abhishek Mitra, Tushar Mittal, Kyungsun Moon, Joel Moore, Sarah Mostame, Mario Motta, Young-Hye Na, Yunseong Nam, Prineha Narang, Yu-ya Ohnishi, Daniele Ottaviani, Matthew Otten, Scott Pakin, Vincent R. Pascuzzi, Edwin Pednault, Tomasz Piontek, Jed W. Pitera, Patrick Rall, Gokul Subramanian Ravi, Niall Robertson, Matteo A. C. Rossi, Piotr Rydlichowski, Hoon Ryu, Georgy Samsonidze, Mitsuhisa Sato, Nishant Saurabh, Kunal Sharma, Soyoung Shin, George Slessman, Mathias Steiner, Iskandar Sitdikov, In-Saeng Suh, Eric D. Switzer, Joel Thompson, Synge Todo, Minh C. Tran, Dimitar Trenev, Christian Trott, Huan-Hsin Tseng, Norm M. Tubman, Esin Tureci, David García Valiñas, Sofia Vallecorsa, Christopher Wever, Konrad W. Wojciechowski, Xiaodi Wu 0001, Shinjae Yoo, Nobuyuki Yoshioka, Victor Wen-zhe Yu, Seiji Yunoki, Sergiy Zhuk, Dmitry Zubarev
Future Gener. Comput. Syst.128
2020 Expert-in-the-loop AI for Polymer Discovery
abstract
The use of AI in knowledge dense domains, e.g., chemistry, medicine, biology, etc. - is extremely promising, but often suffers from slow deployment and adaptation to different tasks. We propose a methodology to quickly capture the intent and expertise of a domain expert in order to train personalized AI models for specific tasks. Specifically we focus on the domain of polymer materials design and discovery: it often takes 10 years or more to design, synthesize, test, and introduce a new polymer material into the market. One way to accelerate up the design of polymer materials is through the use of computational methods to design the material, such as combinatorial screening, generative models, inverse design, etc. The drawback of these methods is that they generate a large number of candidates for new molecules, which then need to be manually reviewed by subject matter experts who select only a dozen for further investigation. Our solution is a human-in-the-loop methodology where we rank the candidates according to a utility function that is learned via the continued interaction with the subject matter experts, but which is also constrained by specific chemical knowledge. We prove the viability of our proposed methodology in a polymer production lab and we (i) evaluate against datasets of polymers previously produced in the lab as well as (ii) producing several novel materials that are undergoing experimental development, and (iii) quantitatively show that standard synthetic accessibility scores do not inform about patterns of SME decisions.
Petar Ristoski, Dmitry Zubarev, Anna Lisa Gentile, Nathaniel Park, Dan Sanders 0002, Daniel Gruhl, Linda Kato, Steve Welch
CIKM2
2020 Molecular Inverse-Design Platform for Material Industries
abstract
The discovery of new materials has been the essential force which brings a discontinuous improvement to industrial products' performance. However, the extra-vast combinatorial design space of material structures exceeds human experts' capability to explore all, thereby hampering material development. In this paper, we present a material industry-oriented web platform of an AI-driven molecular inverse-design system, which automatically designs brand new molecular structures rapidly and diversely. Different from existing inverse-design solutions, in this system, the combination of substructure-based feature encoding and molecular graph generation algorithms allows a user to gain high-speed, interpretable, and customizable design process. Also, a hierarchical data structure and user-oriented UI provide a flexible and intuitive workflow. The system is deployed on IBM's and our client's cloud servers and has been used by 5 partner companies. To illustrate actual industrial use cases, we exhibit inverse-design of sugar and dye molecules, that were carried out by experimental chemists in those client companies. Compared to a general human chemist's standard performance, the molecular design speed was accelerated more than 10 times, and greatly increased variety was observed in the inverse-designed molecules without loss of chemical realism.
Seiji Takeda, Toshiyuki Hama, Hsiang-Han Hsu, Victoria A. Piunova, Dmitry Zubarev, Dan Sanders 0002, Jed W. Pitera, Makoto Kogoh, Takumi Hongo, Yenwei Cheng, Wolf Bocanett, Hideaki Nakashika, Akihiro Fujita, Yuta Tsuchiya, Katsuhiko Hino, Kentaro Yano, Shuichi Hirose, Hiroki Toda, Yasumitsu Orii, Daiju Nakano
KDD5
2019 A recommender system for antimicrobial resistance
abstract
We have developed a method for prediction of antimicrobial resistance by representing the antibiogram and associated metadata in the matrix form, determining parameter of matrix factorization, i.e., the number of the latent factors, carrying out matrix factorization of the initial association matrix and construction of the new association matrix containing predictions of the associations between multiple samples antibiogram and associated metadata.
Sarath Swaminathan, Dmitry Zubarev, Mark Kunitomi
BIBM2
2017 Materials Science Literature-Patent Relevance Search: A Heterogeneous Network Analysis Approach
abstract
In recent decades, materials science literature and patents have grown exponentially. This has also contributed to an ever-growing challenge whether the literature is current, as there can be a gap between when the patent was filed and when it was approved. Moreover, it is difficult to ensure that a patent cites the appropriate prior art due to variety and volume of materials science data, especially when it is in two separate sources that have different curation mechanisms and purpose - publications and patents. The existing relational database schema, generally used to store publications, also presents challenges given the strict tabular schema, which may not be appropriate for organizing and querying highly interconnected information about materials in these publications and patents. For example, elements are chemically combined to form a compound, which can then be converted to other compounds via chemical reactions. Furthermore, relational database is not designed for handling combining data from multiple sources and with various formats, thus it makes discover relevance between publications and patents become difficult. In order to explore an alternative approach to represent materials data and combine data from multiple sources into the same repository, in this work, we propose a solution to integrate data from Open Quantum Materials Database (OQMD) and patent data from USPTO1 database into a network and named it heterogeneous materials information network (HMIN). We generalize prior work which based on using meta path-based topological features to explore the network, and we propose features to identify network noise and investigate relatedness between different-typed objects to meet our application needs. We built several machine learning models by using these features to explore relevance between materials science publications and patents. Experiment results show that HMIN can help researchers effectively discover related publications and patents originally kept in different sources. Our work exhibits to materials community a new way of appro-priately representing materials data and discovering connections between data from multiple sources.
Pingjie Tang, Jed W. Pitera, Dmitry Zubarev, Nitesh V. Chawla
DSAA3