Kazuki Nakamae

Profile Information

Affiliation: Assistant Professor, Genome Editing Innovation Center, Hiroshima University
: Senior Researcher, Research and Development Division, PtBio Inc.

Researcher number: 00882995
ORCID ID: https://orcid.org/0000-0002-4469-664X
J-GLOBAL ID: 202001005862920480
researchmap Member ID: R000012121

Research Interests

Research Areas

Research History

Apr, 2022 - Present

Assistant Professor, Genome Editing Innovation Center, Hiroshima University
Apr, 2020 - Present

Senior Researcher, PtBio Inc.
Apr, 2020 - Mar, 2022

Postdoctoral Researcher, Genome Editing Innovation Center, Hiroshima University

Education

Apr, 2017 - Mar, 2020

Department of Mathematical and Life Sciences, Graduate School of Science, Hiroshima University

Committee Memberships

Jul, 2022 - Present

教育実習委員会委員, Japanese Society for Genome Editing

Awards

Jun, 2023

ポスター賞研究員・ポスドクの部, DANGER Analysis：表現型への影響を評価する新規オフターゲット解析ツール, 日本ゲノム編集学会第8回大会

Major Papers

DANGER analysis: risk-averse on/off-target assessment for CRISPR editing without a reference genome

Kazuki Nakamae, Hidemasa Bono

Bioinformatics Advances, 3(1) vbad114, Aug 23, 2023 Peer-reviewedLead authorCorresponding author
Biased genome editing using the local accumulation of DSB repair molecules system.

Shota Nakade, Keiji Mochida, Atsushi Kunii, Kazuki Nakamae, Tomomi Aida, Kohichi Tanaka, Naoaki Sakamoto, Tetsushi Sakuma, Takashi Yamamoto

Nature communications, 9(1) 3270-3270, Aug 16, 2018 Peer-reviewed
Establishment of expanded and streamlined pipeline of PITCh knock-in - a web-based design tool for MMEJ-mediated gene knock-in, PITCh designer, and the variations of PITCh, PITCh-TG and PITCh-KIKO.

Kazuki Nakamae, Yuki Nishimura, Mitsumasa Takenaga, Shota Nakade, Naoaki Sakamoto, Hiroshi Ide, Tetsushi Sakuma, Takashi Yamamoto

Bioengineered, 8(3) 302-308, May 4, 2017 Peer-reviewedLead author

Misc.

Machine learning of transcriptome data treated with DNA base editor

Kazuki Nakamae, Taro Kakuzaki, Kentaro Yamamoto

BioHackrXiv, Jul 12, 2023 Lead authorCorresponding author
Frame Editors for Precise, Template-Free Frameshifting

Shota Nakade, Kazuki Nakamae, Tzu-Chieh Tang, Dou Yu, Tetsushi Sakuma, Takashi Yamamoto, Timothy K. Lu

bioRxiv, Dec 5, 2022
Detailed profiling with MaChIAto reveals various genomic and epigenomic features affecting the efficacy of knock-out, short homology-based knock-in and Prime Editing.

Kazuki Nakamae, Mitsumasa Takenaga, Shota Nakade, Akinori Awazu, Naoaki Sakamoto, Takashi Yamamoto, Tetsushi Sakuma

bioRxiv, Jun 30, 2022 Lead authorCorresponding author

Major Books and Other Publications

バイオDBとウェブツール : ラボで使える最新70選 : 知る・学ぶ・使う、バイオDX時代の羅針盤

中前和恭 (Role: Contributor, 第4章ゲノム編集実験を支援する)

羊土社, Nov, 2022 (ISBN: 9784758104067)
みんなのバイオDX〜公共データの海で宝探しをはじめよう

(Role: Joint author, ［コラム］ゲノム編集のドライ系ツール)

羊土社, Nov 19, 2021
ゲノム編集実験スタンダード : 完全版 : CRISPR-Cas9の設計・作製と各生物種でのプロトコールを徹底解説

山本, 卓(理学), 佐久間, 哲史, 中前和恭

羊土社, Dec, 2019 (ISBN: 9784758122443)

Major Presentations

Computational Resources for Industrial Application of Genome Editing

Kazuki Nakamae

JAACT2023, Nov 30, 2023 Invited
Pitch Designer 2.0: Fully Automated Sequence Design Tool for CRISPR-Cas9-Mediated Knock-in Using Template for Short Homology-Based DSB Repair

Kazuki Nakamae, Shota Nakade, Naoaki Sakamoto, Tetsushi Sakuma, Takashi Yamamoto

PAG30, Jan 17, 2023
Computational resources for designing appropriate guide RNAs

Kazuki Nakamae

The 7th Annual Meeting of the Japanese Society for Genome Editing, Jun 6, 2022, 日本ゲノム編集学会 Invited
Analysis of genomic and epigenomic features affecting the efficacy of MMEJ-assisted knock-in using machiato

Kazuki Nakamae

Frontiers in Genome Engineering 2019, Nov 26, 2019

Professional Memberships

Sep, 2020 - Present

The Molecular Biology Society of Japan
May, 2017 - Present

The Japanese Society for Genome Editing

Major Works

DANGER analysis

Kazuki Nakamae

Aug 23, 2023 - Present Software
Genome Editing Software Guide

Kazuki Nakamae

Nov 8, 2022 - Present Database
MaChIAto

Kazuki Nakamae

Jun 30, 2022 - Present Software
PITCh designer

Kazuki Nakamae

Apr 28, 2017 - Present Software

Research Projects

The establishment of the Prime Editing database for personalized genetic medicine

Grants-in-Aid for Scientific Research Grant-in-Aid for Early-Career Scientists, Grant-in-Aid for Early-Career Scientists, Japan Society for the Promotion of Science, Apr, 2021 - Mar, 2023

Kazuki Nakamae
ROIS-DS-JOINT 2023：Joint Research Program／一般共同研究

ROIS-DS-JOINT 2023, 2023 - 2023
ROIS-DS-JOINT 2022：Joint Research Program／一般共同研究

ROIS-DS-JOINT 2022, 2022 - 2022

Academic Activities

Toward Data-Driven Genome Breeding with Bio-DX

Planning, management, etc., Panel moderator, session chair, etc.

Hidemasa Bono, Kazuki Nakamae, Dec 6, 2023 - Dec 6, 2023

Media Coverage

Researchers develop DANGER analysis tool for the safer design of gene editing

Hiroshima University, Press Release, https://www.hiroshima-u.ac.jp/en/news/79417, Sep, 2023 Internet
【研究成果】凸版印刷と、広島大学、プラチナバイオゲノム編集支援オープンプラットフォームを開発～AI活用でゲノム編集の研究開発をサポートし、新たなバイオビジネスを実現～

Hiroshima University, Hiroshima University, Mar 5, 2021 Internet

Profile Information

Research Interests

Research Areas

Research History

Education

Committee Memberships

Awards

Major Papers

Misc.

Major Books and Other Publications

Major Presentations

Professional Memberships

Major Works

Research Projects

Academic Activities

Media Coverage

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Coauthors