KAZUKI NAKAMAE
Last Updated :2023/11/01
- Affiliations, Positions
- Hiroshima University Genome Editing Innovation Center, Assistant Professor, Collaborative Research Laboratory
- Web Site
- E-mail
- kazuki-nakamae
hiroshima-u.ac.jp
- Other Contact Details
- 1C-01, Genome Editing Innovation Center, Hiroshima University,
3-10-23 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-0046, Japan, Japan
TEL : (+81)82-424-3989 FAX : (+81)
- Self-introduction
- I am developing software involved with the genome editing with my great collaborators.
Basic Information
Major Professional Backgrounds
- 2022/04/01, Hiroshima University, Genome Editing Innovation Center, Assistant Professor, Collaborative Research Laboratory
- 2020/04/01, PtBio Inc., Senior Researcher
- 2020/04/01, 2022/03/31, Hiroshima University, Genome Editing Innovation Center, Postdoctoral Researcher
Educational Backgrounds
- Hiroshima University, Graduate School of Science, Department of Mathematical and Life Sciences, Japan, 2017/04/01, 2020/03/23
Academic Degrees
- Doctor of Science, Hiroshima University
- Master of Science, Hiroshima University
Research Fields
- Informatics;Frontiers of informatics;Life / Health / Medical informatics
- Biological Sciences;Genome science;System genome science
- Biological Sciences;Genome science;Medical genome science
- Biological Sciences;Genome science;Genome biology
Research Keywords
- Prime Editing
- bioinformatics
- BioDX
- Gene knockout
- Gene knockin
- CRISPR-Cas9
- Sequence Analysis
- knock-in design
- Genome Editing
Affiliated Academic Societies
- The Molecular Biology Society of Japan
- The Japanese Society for Genome Editing
Research Activities
Academic Papers
- ★, DANGER analysis: risk-averse on/off-target assessment for CRISPR editing without a reference genome, Bioinformatics Advances, vbad114, 20230823
- Danger Analysis: Risk-Averse on/off-Target Assessment for CRISPR Editing Without a Reference Genome, bioRxiv, 20230313
- Frame Editors for Precise, Template-Free Frameshifting, bioRxiv, 20221206
- ★, Genome editing and bioinformatics, Gene and Genome Editing, 3–4(100018), 20221108
- Detailed profiling with MaChIAto reveals various genomic and epigenomic features affecting the efficacy of knock-out, short homology-based knock-in and Prime Editing, bioRxiv, 20220630
- Biased genome editing using the local accumulation of DSB repair molecules system, NATURE COMMUNICATIONS, 9(1), 3270, 20180816
- ★, 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, BIOENGINEERED, 8(3), 302-308, 20170428
Invited Lecture, Oral Presentation, Poster Presentation
- DANGER Analysis: A Novel Off-target Analysis Software to Assess Phenotypic Impact, Kazuki Nakamae, Hidemasa Bono, 8th Annual Meeting of The Japanese Society for Genome Editing, 2023/06/06, Without Invitation, English
- 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, 2023/01/13, Without Invitation, English, San Diego, CA, USA
- 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, PAG 30, 2023/01/13, Without Invitation, English, San Diego, CA, USA
- Sequence-based parameters contributing to the efficiency and accuracy of MMEJ-assisted knock-in and Prime Editing, Kazuki Nakamae, Kunihisa Yamamoto, Mitsumasa Takenaga, Shota Nakade, Naomi Tagashira, Ichiro Nazuka, Akinori Awazu, Naoaki Sakamoto, Tetsushi Sakuma, Takashi Yamamoto, FASEB: The Genome Engineering Conference: Cutting-edge Research and Applications, 2022/06/26, Without Invitation, English, Lisbon, Portugal
- Computational resources for designing appropriate guide RNAs, Kazuki Nakamae, The 7th Annual Meeting of the Japanese Society for Genome Editing, 2022/06/06, With Invitation, Japanese
- Sequence-based parameters contributing to the efficiency of MMEJ-assisted knock-in and Prime Editing, Kazuki Nakamae, CSHL meetings: GENOME ENGINEERING: CRISPR FRONTIERS, 2021/08/18, Without Invitation, English, Online
- MaChIAto: detailed profiling tool for various genomic features affecting the efficacy of CRISPR-based genome editing, Kazuki Nakamae, The 43rd Annual Meeting of the Molecular Biology Society of Japan, 2020/12/02, Without Invitation, Japanese, The Molecular Biology Society of Japan
- Extended analysis of amplicon sequencing data with MaChIAto for prime editing, Kazuki Nakamae, Mitsumasa Takenaga, Shota Nakade, Ichiro Nazuka, Akinori Awazu, Naoaki Sakamoto, Tetsushi Sakuma, Takashi Yamamoto., CSHL meeting: GENOME ENGINEERING: CRISPR FRONTIERS, 2020/08/19, Without Invitation, English, Online
- Analysis of genomic and epigenomic features affecting the efficacy of MMEJ-assisted knock-in using machiato, Kazuki Nakamae, Frontiers in Genome Engineering 2019, 2019/11/26, Without Invitation, English, Kobe Convention Center, Kobe
- Detailed profiling with MaChIAto reveals various genomic and epigenomic features affecting the efficacy of MMEJ-assisted knock-in, Kazuki Nakamae, Genome Engineering: Frontiers of CRISPR/Cas, 2019/10/12, Without Invitation, English, Cold Spring Horbor Laboratory, Cold Spring Horbor, New York
- Analysis of genomic and epigenomic elements contributing to the efficiency of MMEJ-assisted knock-in, Kazuki Nakamae, The 4th annual meeting of for Japanese society for genome editing, 2019/06/05, Without Invitation, Japanese
- PITCh designer 2.0: Automated web-based design tool for MMEJ-mediated knock-in, Kazuki Nakamae, The 3rd annual meeting of for Japanese society for genome editing, 2018/06/19, Without Invitation, Japanese
- PITCh designer 2.0: fully automated sequence design tool for the generation and validation of MMEJ mediated knock in, Kazuki Nakamae, Keystone Symposia, Precision Genome Editing with Programmable Nucleases(B1), 2018/01/30, Without Invitation, English, Keystone Resort, Keystone, Colorado
- Automated web-based design tool for MMEJ-mediated gene knock-in, Kazuki Nakamae, Cold Spring Harbor meeting, Genome Engineering: The CRISPR-Cas Revolution, 2017/07/23, Without Invitation, English, Cold Spring Horbor Laboratory, Cold Spring Horbor, New York
- Automated web-based design tool for MMEJ-mediated gene knock-in, Kazuki Nakamae, The 2nd annual meeting of for Japanese society for genome editing, 2017/06/29, Without Invitation, Japanese
Works, etc.
- DANGER Analysis, Kazuki Nakamae, Software
- Genome Editing Software Guide, Kazuki Nakamae, 2022, Web Service
- MaChIAto, Kazuki Nakamae, 2022, Software
- PITCh designer, Kazuki Nakamae, Software
- PITCh designer2.0, Kazuki Nakamae, Software
External Funds
Acceptance Results of Competitive Funds
- ROIS-DS-JOINT 2023, Developing prediction tool for off-target RNAs via CRISPR-Cas9
based on published transcriptome data, 2023, 2023
- ROIS-DS-JOINT 2022, Developing prediction tool for off-target RNAs via CRISPR-Cas9
based on published transcriptome data, 2022, 2022
- KAKENHI(Grant-in-Aid for Early-Career Scientists), 2021, 2022