Nobuaki Kono

Nobuaki Kono

Project Lecturer
Graduate School of Media and Governance
DegreesPh.D. (Arts and Sciences)
Short BiographyB.A., Faculty of Environment and Information Studies, Keio University (2004/4-2008/3)
M.Sc. in Systems Biology Program, Graduate School of Media and Governance, Keio University (2008/4-2010/3)
Ph.D Student in Systems Biology Program, Graduate School of Media and Governance, Keio University (2010/4-2012/3)
Research Fellow (Doctoral course student: DC1 & Postdoc: PD), Japan Society for the Promotion of Science (JSPS) (2010/4-2012/11)
Researcher, Institute for Advanced Biosciences, Keio University (2012/11-2014/3)
Specially Appointed Assistant Professor, Graduate School of Medicine, Osaka University (2014/4-2015/3)
Project Research Associate, Institute for Advanced Biosciences, Keio University (2015/4-2018/3)
Project Assistant Professor, Institute for Advanced Biosciences, Keio University (2018/4-)
Areas of ExpertiseBioinformatics, Synthetic Biology, Systems Biology
AffiliationsInternational Society for Computational Biology (ISCB)
The Molecular Biology Society of Japan
Japanese Society for Bioinformatics
Society of Genome Microbiology, Japan
Arachnological Society of Japan
Selected PublicationsMasuda T, Kono N*, Tomita M, Arakawa K. (2019) Strand-specific Single-stranded DNA Sequencing (4S-seq) of E. coli genomes. Bio-protocol 9(15): e3329.

Kono N, Nakamura H, Ohtoshi R, Moran DAP, Shinohara A, Yoshida Y, Fujiwara M, Mori M, Tomita M, Arakawa K. (2019) Orb-weaving spider Araneus ventricosus genome elucidates the spidroin gene catalogue, Sci Rep., 9(1):8380.

Kono N, Nakamura H, Ohtoshi R, Tomita M, Numata K, Arakawa K (2019) The bagworm genome reveals a unique fibroin gene that provides high tensile strength, Communications Biology, 2:148.

Kono N, Arakawa K. (2019) Nanopore sequencing: Review of potential applications in functional genomics, Dev Growth Differ., 61(5):316-326.

Ohshima Y, Kono N*, Yokota Y, Watanabe S, Sasaki I, Ishioka N, Sakashita T, Arakawa K (2019) Anti-tumor Effects and Potential Therapeutic Response Biomarkers in α-Emitting meta-211At-Astato-Benzylguanidine Therapy for Malignant Pheochromocytoma Explored by RNA-sequencing, Theranostics, 9(6):1538-1549.

Kono N*, Tomita M, Arakawa K (2018) Accelerated laboratory evolution reveals the influence of replication on the GC skew in Escherichia coli. Genome Biology and Evolution 10(11):3110-3117.

Kono N*, Tomita M, Arakawa K (2017) eRP arrangement: a strategy for assembled genomic contig rearrangement based on replication profiling in bacteria. BMC Genomics 18(1):784.

Kono N, Nakamura H, Ito Y, Tomita M, Arakawa K (2016) Evaluation of the impact of RNA preservation methods of spiders for de novo transcriptome assembly. Molecular Ecology Resources 16(3):662-672.

Kono N*, Arakawa K, Sato M, Yoshikawa H, Tomita M, Itaya M (2014) Undesigned selection for replication termination of bacterial chromosomes. Journal of Molecular Biology 426(16), 2918-2927.

Kono N, Arakawa K, Tomita M (2012) Validation of Bacterial Replication Termination Models Using Simulation of Genomic Mutations. PLoS One 7(4), e34526.

Kono N, Arakawa K, Tomita M (2011) Comprehensive prediction of chromosome dimer resolution sites in bacterial genomes. BMC Genomics 12(1), 19.

Kono N, Arakawa K, Ogawa R, Kido N, Oshita K, Ikegami K, Tamaki S, Tomita M (2009) Pathway Projector: Web-Based Zoomable Pathway Browser Using KEGG Atlas and Google Maps API. PLoS One 4(11), e7710.

Kono N, Arakawa K, Tomita M (2006) MEGU: Pathway mapping web-service based on KEGG and SVG. In Silico Biology 6(6), 621-655.

Ii MK, Kono N, Paulino-Lima IG, Tomita M, Rothschild LJ, Arakawa K (2019) Complete genome sequence of Arthrobacter sp. Strain MN05-02, a UV-resistant bacterium from a manganese deposit in the Sonoran Desert, Journal of Genomics, 7:18-25.

Arakawa K, Kono N, Ohtoshi R, Nakamura H, Tomita M (2018) The complete mitochondrial genome of Eumeta variegata (Lepidoptera: Psychidae), Mitochondrial DNA Part B 3(2):812-813.

Itaya M, Sato M, Hasegawa M, Kono N, Tomita M, Kaneko S (2018) Far rapid synthesis of giant DNA in the Bacillus subtilis genome by a conjugation transfer system. Scientific Reports, 8(1):8792.

Kanoh Y, Matsumoto S, Fukatsu R, Kakusho N, Kono N, Renard-Guillet C, Masuda K, Iida K, Nagasawa K, Shirahige K, Masai H (2015) Rif1 binds to G quadruplexes and suppresses replication over long distances. Nature Structural & Molecular Biology 22(11), 889-897.

Hisano Y, Ota S, Arakawa K, Muraki M, Kono N, Oshita K, Sakuma T, Tomita M, Yamamoto T, Okada Y, Kawahara A (2013) Quantitative assay for TALEN activity at endogenous genomic loci. Biology Open BIO20133871.

Toya Y, Kono N, Arakawa K, Tomita M (2011) Metabolic flux analysis and visualization. Journal of Proteome Ressearch 10(8), 3313-3323.

Arakawa K, Tamaki S, Kono N, Kido N, Ikegami K, Ogawa R, Tomita M, (2009) Genome Projector: zoomable genome map with multiple views. BMC Bioinformatics 10(1), 31.

Tamaki S, Arakawa K, Kono N, Tomita M (2007) Restauro-G: A Rapid Genome Re-Annotation System for Comparative Genomics. Genomics Proteomics Bioinformatics 5(1), 53-58.

Arakawa K, Kono N, Yamada Y, Mori H, Tomita M (2005) KEGG-based pathway visualization tool for complex omics data. In Silico Biology 5, 0039.
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