Kazuharu Arakawa 1 protocol

Masaru Tomita 1 protocol

Takahiro Masuda University of Freiburg
2 protocols

Nobuaki Kono
  • Faculty, Institute for Advanced Biosciences, Keio University
Research focus
  • -
  • 1 Author merit

Education

Ph.D., Keio University, Japan, 2010

Publications

• Kono, N., Nakamura, H., Ohtoshi, R., Moran, D. A. P., Shinohara, A., Yoshida, Y., Fujiwara, M., Mori, M., Tomita, M. and 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. and Arakawa, K. (2019). The bagworm genome reveals a unique fibroin gene that provides high tensile strength. Commun Biol 2: 148.
• Kono, N. and 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. S., Sakashita, T. and Arakawa, K. (2019). Anti-tumor effects and potential therapeutic response biomarkers in alpha-emitting meta-(211)At-astato-benzylguanidine therapy for malignant pheochromocytoma explored by RNA-sequencing. Theranostics 9(6): 1538-1549.
• Kono, N., Tomita, M. and Arakawa, K. (2018). Accelerated Laboratory Evolution Reveals the Influence of Replication on the GC Skew in Escherichia coli. Genome Biol Evol 10(11): 3110-3117.
• Kono, N., Tomita, M. and Arakawa, K. (2017). eRP arrangement: a strategy for assembled genomic contig rearrangement based on replication profiling in bacteria. BMC Genomics18(1): 784.
• Kono, N., Nakamura, H., Ito, Y., Tomita, M. and Arakawa, K. (2016). Evaluation of the impact of RNA preservation methods of spiders for de novo transcriptome assembly. Mol Ecol Resour 16(3): 662-672.
• Kono, N., Arakawa, K., Sato, M., Yoshikawa, H., Tomita, M. and Itaya, M. (2014). Undesigned selection for replication termination of bacterial chromosomes. J Mol Biol 426(16): 2918-2927.
• Kono, N., Arakawa, K. and Tomita, M. (2012). Validation of bacterial replication termination models using simulation of genomic mutations. PLoS One 7(4): e34526.
• Kono, N., Arakawa, K. and Tomita, M. (2011). Comprehensive prediction of chromosome dimer resolution sites in bacterial genomes. BMC Genomics 12: 19.
• Kono, N., Arakawa, K., Ogawa, R., Kido, N., Oshita, K., Ikegami, K., Tamaki, S. and 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. and Tomita, M. (2006). MEGU: pathway mapping web-service based on KEGG and SVG.In Silico Biol 6(6): 621-625.
1 Protocol published
Strand-specific Single-stranded DNA Sequencing (4S-seq) of E. coli genomes
Authors:  Takahiro Masuda, Nobuaki Kono, Masaru Tomita and Kazuharu Arakawa, date: 08/05/2019, view: 208, Q&A: 0
Most bacterial genomes have biased nucleotide composition, and the asymmetry is considered to be caused by a single-stranded DNA (ssDNA) deamination arising from the bacterial replication machinery. In order to evaluate the relationship ...
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