Exploring the effects of communal bathing through gut microbial communities of hot-spring-bathing Japanese macaques
Haruka Kitayama, Daiki Kumakura, 井副和貴, 王雪瑩, Takuya Matsumoto, Takashi Hayakawa
Presenter: Haruka Kitayama
Official recordActivities
Conference and seminar presentations
2025
2024
Elucidating the Process of Bacterial Vaginosis Development Using Pseudotime and State Transitions
Daiki Kumakura, Ryohei Shimizuhata, Shinji Nakaoka
Investigation of compositional changes of microbial mats in Jigokudani hot springs, Nagano Prefecture, caused by geographical isolation and environmental conditions
Daiki Kumakura, Jeffrey Fawcett, Euki Yazaki
Official recordUnderstanding and discussing the pathogenesis process and conditions of bacterial vaginosis
Kumakura D
Official recordAnalysis of progression patterns of bacterial vaginosis using energy landscape analysis
Ryohei Shimizuhata, Daiki Kumakura, Shinji Nakaoka
Dry research in microbiology is bioinformatics and mathematical biology
Daiki Kumakura
Theoretical analysis of extinction conditions of drug-resistant plasmids under repeated administration
Daiki Kumakura
The research progress of shotgun metagenomics for either the snow monkey entering bath or not
Haruka Kitayama, Daiki Kumakura
Investigation of biomarker bacteria for very early diagnosis of bacterial vaginosis
Daiki Kumakura
Theoretical analysis of plasmid establishment on repeated treatments
Daiki Kumakura
Construction of a mathematical foundation for the application of phage therapy to bacterial infections
Daiki Kumakura
2023
Coexistence system and invasion conditions of hot spring microbial ecosystems: a fusion of mathematics x experiment
Daiki Kumakura
Official recordSupervised Machine Learning Classification of Bacterial Vaginosis and Microbial Biomarker Search
Ryohei Shimizuhata, Daiki Kumakura, Shinji Nakaoka
The theoretical condition of antibiotic resistance plasmid with antibiotic
Kumakura D
Official recordProposing the best treatment for your pathogenic microorganisms
Daiki Kumakura
Quantitative analysis of antibiotic bactericidal effect and susceptibility
Daiki Kumakura
Theoretical analysis of plasmid fixation condition under antibiotic addition
Daiki Kumakura
Official recordInvestigation of hot spring microbiome at Jigokudani onsen and the microbial vector of Japanese monkey's behavior
Daiki Kumakura
Microbial diversity with the Japanese monkey entering Jigokudani onsen hotspring
Daiki Kumakura
Basic of microbial ecology and applicability of your life and research
Daiki Kumakura
Official record2022
An approach to forecast harmful algal blooms in Chile using emprical dynamic modeling
Ishara Uhanie Perera, So Fujiyoshi, Daiki Kumakura, Shinji Nakaoka, Fumito Maruyama
Studying the microbiome heterogenity between several hotspring source in the Jigokudani onsen at Nagano prefecture
Hiroki Teramori, Daiki Kumakura, Haruka Kitayama, Takashi Hayakawa, Takuya Matsumoto
Hotspring microbiome diversity with Macaca fuscata entering
Daiki Kumakura, Haruka Kitayama, Hiroki Teramori, Takashi Hayakawa, Takuya Matsumoto
Theoretical analysis of microbial co-culture system depending on limiting substrate
Daiki Kumakura, Shinji Nakaoka
Theoretical analysis of the extinction condition for the plasmid-carrying bacteria
Daiki Kumakura
Theoretical analysis of the extinction condition for the plasmid-carrying bacteria
Daiki Kumakura
The relationship between the behavior of Macaca fuscata and microbes in the Jigokudani-onsen
T Matsumoto, T Hayakawa, M Ueno, H Kitayama, D Kumakura, H Teramori, I Nakaoka, Y Nechijima, T Hasegawa, K Minagawa, T Yokoyama
Official recordDiversity of Asgardarchaota and Theoretical verification of endosymbiotic theory
Daiki Kumakura
Official recordThe relationship between host and virus in the natural environments
Daiki Kumakura
Theoretical analysis of microbial dynamics considering functional labor
Daiki Kumakura, Ryo Yamaguchi, Akane Hara, Shinji Nakaoka
Official recordGrowth dynamics of microbes in consideration of environmental suitability
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Official record2021
Bacterial growth with subpopulation
Daiki Kumakura
Microbial dark matter estimation on time series causality method
Daiki Kumakura
Official recordMulti-omics analysis of honey bees for searching diseases
Daiki Kumakura, Junya Sunagawa, Takuya Shiramata, Shinji Nakaoka, Masaki Kamakura
Official recordVirome analysis to explore virus ubiquity in honeybees
Junya Sunagawa, Daiki Kumakura, Takuya Shiramata, Shinji Nakaoka, Masaki Kamakura
Official recordAnalysis and validation of microbial growth dynamics with the environment suitability
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Analysis and validation of microbial growth dynamics with the environment suitability
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Analysis and validation of microbial growth dynamics with the environment suitability
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Compositional data applicability of causal estimation methods using CCM
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Official recordPrediction and availability of ecosystem phenomena at the macro level by optimality of embedding dimension
Daiki Kumakura
Application of mathematical science methods for community function analysis and design of soil microbial ecosystems
Shinji Nakaoka, Daiki Kumakura
2020
Reconstruction of a vector field using a time-series causal approach
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Official recordVerification of inference of causality method using relative abundance in the Lotka-Volterra equation
Daiki Kumakura, Ryo Yamaguchi, Shinji Nakaoka
Organization and service
2025
Smart heuristics of a single-celled organism
Speaker: Toshiyuki Nakagaki
Official recordExploring the evolutionary fate of a mutualistic community using automated microbial culture system
Speaker: Junya Sunagawa
Official record2024
Theoretical analysis of High-dose/Refuge strategy for durability of pest control
Speaker: Sayaki Suzuki
Official recordPh.D, what do you do in Japan? Or to GO! ~Let's hear what our seniors have to say about their experiences~
Listed participants: Kumakura D, Akashi R, Nishiyama T
4th Summer School for Theoretical Biology
Listed participants: Kumakura D, Morita K, Nishiyama T, Yoshimura R, Akashi R, Nakano R, Minami S, Isshiki R
Official recordFinding and understanding disease-causing genetic mutations
Speaker: Shohei Kojima
Official recordA socio-ecological and genomic approach to mixed-species formation of African forest guenons
Speaker: Haruka Kitayama
Official record2023
Application of mathematical models to the COVID-19 cohort study
Speaker: Takara Nishiyama
Official recordHow is host-symbiont specificity determined? ---Host’s partner-choice mechanisms and symbiont’s motility
Speaker: Yoshitomo Kikuchi
Official recordLet's Talk Young! Mathematical Biology 2023
Listed participants: Kumakura D, Morita K
3rd Summer School of Mathematical Biology
Listed participants: Kumakura D, Morita K, Nishiyama T, Kumata R
Official recordDeciphering speciation processes: a mathematical modeling approach to biodiversity patterns
Speaker: Ryo Yamaguchi
Official record2022
New Perspectives on Environmental Virology for Everyone
Listed participants: Daiki Kumakura, Kento Tominaga, Daichi Morimoto, Ryuta Wagatsuma
Hessian Geometric Structure of Equilibrium and Nonequilibrium Chemical Reaction Newtworks
Speaker: Tetsuya J Kobayashi
Official recordHow can we create a more communicative application chart?
Listed participants: Kyoko Kojima, Akiko Takahashi, Eiri Ono, Daiki Kumakura
Official recordOutreach and media
2024
Expanding New Medical Possibilities From Microbial Research
Daiki Kumakura
Related resource · Related resource · Official recordOmoshiro! Hokudai Lab.
Daiki Kumakura
Related resource · Related resource · Related resource · Official recordLet's use mathematics
T Nagai, T Shimada, N Shinozaki, D Kumakura et al
Let's use mathematics
T Nagai, T Shimada, N Shinozaki, D Kumakura et al
School Strike! ~Cho-Hokudaisei~, IMAREAL
Daiki Kumakura
RIKEN DAY: Introducing “Mathematics: One S&T Poster for Every Household”
Tomoya Nagai, Naoko Shinozaki, Daiki Kumakura
Official recordThe commemorative lecture for "Science and Technology Week”
T Nagai, T Hatsuda, S Matsuura, R Iritani, N tsuzi, D Kumakura
Related resource · Official recordStudy Material "One Poster per Family" Connecting "Mathematics" to the World
Nagai T, Kaneko I, Kumakura D, Iritani R et al
Official record2023
Close-up on Research in Focus “Mathematics Reveals the Wonders of Cleaning Bacteria”
Daiki Kumakura
Related resource · Related resource · Official record