Research field (2)：
Genomics
, Biological, health, and medical informatics
Research theme for competitive and other funds (55)：
2021 - 2025 Wastewater-based genomic epidemiology on international comparison and transportation of SARS-CoV-2 variants and antimicrobial resistance
2020 - 2023 汎フィロウイルス治療薬開発に向けたドライ-ウェット融合型研究基盤の構築
2019 - 2022 Elucidation of the mechanism for auto-penetrating DNA aptamers and their application as post-antibody drugs
2017 - 2022 エキスパートがキュレートしたtRNA遺伝子データベース
2018 - 2021 The integrated multi-omics analysis of nontuberculous mycobacteria using neural network algorithms to construct a predictive model of the pathological features
2018 - 2021 Why epidemic period of respiraotry syncytial virus has shift to summer time?
2017 - 2020 Development of horizontal gene transfer detection system and elucidation of environmental adaptation and co-evolution process
2016 - 2019 Elucidation of the function of a novel mouse gene in the central nervous system
2015 - 2019 Archiving of the symbionts of arthropods for controlling vector-borne diseases
2015 - 2019 Indicator search for bacterial taxon in the horizontal gene transfer world
2015 - 2019 Fundamentals for innovative anaerobic digestion processes using electric syntrophy
2015 - 2018 The role of protozoa in the emergence of diseases
2014 - 2017 Development of a novel bioinformatics method to analyze big genome sequence data for efficient knowledge discovery
2012 - 2017 Genome analysis of biosphere of Moss-pillar in an east Antarctic lake
2015 - 2017 エキスパートがキュレートしたtRNA遺伝子データベース
2013 - 2016 Comparative analysis of RNA editing sites in the mouse using intersubspecific consomic strains
2011 - 2013 A bioinformatics strategy for revealing microbial community structures and metabolic pathways by reconstructing multiple genomes from metagenomic sequences.
2008 - 2010 Function prediction of poorly-characterized protein genes found in genome sequences with high-performance supercomputers and its publication
2008 - 2010 A bioinformatics strategy to clarify microbial community structures by analyzing metagenomic sequences on the basis of Batch-Learning Self-Organizing Map
2004 - 2005 Bioinformatics strategy for unveiling hidden genome signatures and biodiversity
2004 - 2004 ゲノムに潜むシグナル・モチーフ部品の網羅的探索のための自己組織化地図
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Papers (103)：
So Nakagawa, Toshiaki Katayama, Lihua Jin, Jiaqi Wu, Kirill Kryukov, Rise Oyachi, Junko S Takeuchi, Takatomo Fujisawa, Satomi Asano, Momoka Komatsu, et al. SARS-CoV-2 HaploGraph: visualization of SARS-CoV-2 haplotype spread in Japan. Genes & Genetic Systems. 2023
Yuki Iwasaki, Takashi Abe, Toshimichi Ikemura. Oligonucleotide usage in coronavirus genomes mimics that in exon regions in host genomes. Virology journal. 2023. 20. 1. 39-39
Masaki Okunaga, Kenta Kushiro, Ryohei Horie, Akihiro Kondo, Takashi Abe. Identification of microbes coexisting with Legionella spp. in bathwaters. NPJ CLEAN WATER. 2022. 5. 1
Yuki Iwasaki, Toshimichi Ikemura, Kennosuke Wada, Yoshiko Wada, Takashi Abe. Comparative genomic analysis of the human genome and six bat genomes using unsupervised machine learning: Mb-level CpG and TFBS islands. BMC Genomics. 2022. 23. 1
Toshimichi Ikemura, Yuki Iwasaki, Kennosuke Wada, Yoshiko Wada, Takashi Abe. AI-based search for convergently expanding, advantageous mutations in SARS-CoV-2 by focusing on oligonucleotide frequencies. PLOS ONE. 2022. 17. 8. e0273860-e0273860
Advances in Viral Genomes Research; Novel bioinformatics method to analyze more than 10,000 influenza virus strains easily at once: Batch-Learning Self Organizing Map (BLSOM).
Nova Science Publishers, Inc. 2013
ベーシックマスター分子生物学; 16章 ゲノミクス
オーム社 2013
Encyclopedia of Metagenomics; tRNADB-CE and use of tRNAs as phylogenetic markers for metagenomic sequences.
Springer 2013
2020/09 - 日本獣医学会 2019年(第81巻)JVMS優秀論文賞 Viral population analysis of the taiga tick, Ixodes persulcatus, by using Batch Learning Self-Organizing Maps and BLAST search. The Journal of Veterinary Medical Science 81(3)401-410, 2019
