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Hoon-Min Kim

dblp:370/6113 · DBLP profile ↗
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1ranked-venue papers
0as first author
1since 2021 · last 2023
0009-0007-4881-722XORCID · reported

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

Applied, interdisciplinary, general and emerging computing · 1 · 1 since 2021

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
Bioinformatics and computational biology · 100%

Topics — the 1 heaviest of 1, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › systems biology
computational systems biology
0.712023
Global stabilizing control of large-scale biomolecular regulatory networks · Bioinform. 2023

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

strongly connected components · 0.7feedback vertex sets · 0.7canalization analysis · 0.7boolean network dynamics · 0.7
YearPublicationVenuePosition
2023 Global stabilizing control of large-scale biomolecular regulatory networks
abstract
MOTIVATION: Cellular behavior is determined by complex non-linear interactions between numerous intracellular molecules that are often represented by Boolean network models. To achieve a desired cellular behavior with minimal intervention, we need to identify optimal control targets that can drive heterogeneous cellular states to the desired phenotypic cellular state with minimal node intervention. Previous attempts to realize such global stabilization were based solely on either network structure information or simple linear dynamics. Other attempts based on non-linear dynamics are not scalable. RESULTS: Here, we investigate the underlying relationship between structurally identified control targets and optimal global stabilizing control targets based on non-linear dynamics. We discovered that optimal global stabilizing control targets can be identified by analyzing the dynamics between structurally identified control targets. Utilizing these findings, we developed a scalable global stabilizing control framework using both structural and dynamic information. Our framework narrows down the search space based on strongly connected components and feedback vertex sets then identifies global stabilizing control targets based on the canalization of Boolean network dynamics. We find that the proposed global stabilizing control is superior with respect to the number of control target nodes, scalability, and computational complexity. AVAILABILITY AND IMPLEMENTATION: We provide a GitHub repository that contains the DCGS framework written in Python as well as biological random Boolean network datasets (https://github.com/sugyun/DCGS). SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Sugyun An, Soyeong Jang, Sang-Min Park, Chun-Kyung Lee, Hoon-Min Kim, Kwang-Hyun Cho
Bioinform.5