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67 followers · 8 following

Achievements

Achievement: Pull SharkAchievement: Arctic Code Vault Contributor
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Achievements

Achievement: Pull SharkAchievement: Arctic Code Vault Contributor
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ponnhide/README.md

Research Interests

  • Bioinformatics tool development
  • Genetic logic circuit in living cells
  • Laboratory automation

Publications

Selected articles

  1. Mori H, Yachie N. A framework to efficiently describe and share reproducible DNA materials and construction protocols. Nat Commun. 2022 May 24;13(1):2894. doi: 10.1038/s41467-022-30588-x. PMID: 35610233; PMCID: PMC9130275.
  2. Sakata RC†, Ishiguro S†, Mori H†, Tanaka M, Tatsuno K, Ueda H, Yamamoto S, Seki M, Masuyama N, Nishida K, Nishimasu H, Arakawa K, Kondo A, Nureki O, Tomita M, Aburatani H, Yachie N. Base editors for simultaneous introduction of C-to-T and A-to-G mutations. Nat Biotechnol. 2020 Jul;38(7):865-869. doi: 10.1038/s41587-020-0509-0. Epub 2020 Jun 2. PMID: 32483365. †These authors equally contributed to this work.
  3. Mori H, Evans-Yamamoto D, Ishiguro S, Tomita M, Yachie N. Fast and global detection of periodic sequence repeats in large genomic resources. Nucleic Acids Res. 2019 Jan 25;47(2):e8. doi: 10.1093/nar/gky890. PMID: 30304510; PMCID: PMC6344855.

Software tools

  1. QUEEN
  2. SPADE
  3. patchworklib
  4. pyCircos
  5. sangerseq_viewer

Pinned

  1. yachielab/SPADE yachielab/SPADE Public

    Python 14 6

  2. yachielab/QUEEN yachielab/QUEEN Public

    QUEEN: a framework to generate quinable and efficiently editable nucleotide sequence resources

    Python 34 8

  3. pyCircos pyCircos Public

    python Circos

    Python 309 64

  4. patchworklib patchworklib Public

    Patchwork for matplotlib: A subplot manager for intuitive layouts in matplotlib, seaborn, and plotnine.

    Python 344 23

  5. plasmidviewer plasmidviewer Public

    Python library to visualize circular plasmid maps

    Python 19 2

  6. sangerseq_viewer sangerseq_viewer Public

    sangerseq_viewer is a python package to automatically visualize Sanger sequencing results and the corresponding annotated sequence map.

    Python 26 3