Chao Zeng

Profile Information

Affiliation: Research Institute for Science and Engineering, Waseda University

Degree: Ph.D. (Science)(The University of Tokyo)
修士（情報学）(京都大学)

J-GLOBAL ID: 201801020824640890
researchmap Member ID: B000310215

External link: https://zengchao.me

Research Interests

lncRNA

Research Areas

Informatics / Biological, health, and medical informatics /

Research History

Apr, 2021 - Present

Waseda University
Nov, 2018 - Mar, 2021

Postdoctoral Researcher, AIST-Waseda University Computational Bio Big-Data Open Innovation Laboratory (CBBD-OIL), National Institute of Advanced Industrial Science and Technology (AIST)
May, 2018 - Oct, 2018

Research Associate, Waseda Research Institute for Science and Engineering, Waseda University
Dec, 2016 - Apr, 2018

Technical Staff, AIST-Waseda University Computational Bio Big-Data Open Innovation laboratory (CBBD-OIL), National Institute of Advanced Industrial Science and Technology (AIST)
Apr, 2016 - Nov, 2016

Project Researcher, Graduate School of Frontier Sciences, The University of Tokyo

Education

Apr, 2013 - Mar, 2016

Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo
Apr, 2011 - Mar, 2013

Department of Intelligence Science and Technology, Graduate School of Informatics, Kyoto University

Awards

Jul, 2023

Waseda University Teaching Award (Fall 2022), Waseda University

Michiaki Hamada, Chao Zeng
Jul, 2017

Research Award for Joint Conference of Informatics In Biology, Medicine and Pharmacology, Japanese Society for Bioinformatics (JSBi)

Chao Zeng

Papers

Identification of a novel RNA transcript TISPL upregulated by stressors that stimulate ATF4

Yutaro Wakabayashi, Aika Shimono, Yuki Terauchi, Chao Zeng, Michiaki Hamada, Kentaro Semba, Shinya Watanabe, Kosuke Ishikawa

Gene, 917 148464-148464, Jul 30, 2024 Peer-reviewed
Inflammation primes the kidney for recovery by activating AZIN1 A-to-I editing.

Segewkal Heruye, Jered Myslinski, Chao Zeng, Amy Zollman, Shinichi Makino, Azuma Nanamatsu, Quoseena Mir, Sarath Chandra Janga, Emma H Doud, Michael T Eadon …

bioRxiv : the preprint server for biology, Nov 9, 2023
Landscape of semi-extractable RNAs across five human cell lines.

Chao Zeng, Takeshi Chujo, Tetsuro Hirose, Michiaki Hamada

Nucleic acids research, Jul 19, 2023 Peer-reviewedLead author
Bioinformatics Approaches for Determining the Functional Impact of Repetitive Elements on Non-coding RNAs

Chao Zeng, Atsushi Takeda, Kotaro Sekine, Naoki Osato, Tsukasa Fukunaga, Michiaki Hamada

Methods in Molecular Biology, 2509 315-340, 2022 Peer-reviewedInvitedLead authorCorresponding author
Impact of human gene annotations on RNA-seq differential expression analysis

Yu Hamaguchi, Chao Zeng, Michiaki Hamada

BMC Genomics, 22 730, Oct, 2021 Peer-reviewed
Binding patterns of RNA-binding proteins to repeat-derived RNA sequences reveal putative functional RNA elements

Masahiro Onoguchi, Chao Zeng, Ayako Matsumaru, Michiaki Hamada

NAR Genomics and Bioinformatics, 3(3), Jul 2, 2021 Peer-reviewed
Long Non-Coding RNA CRNDE Is Involved in Resistance to EGFR Tyrosine Kinase Inhibitor in EGFR-Mutant Lung Cancer via eIF4A3/MUC1/EGFR Signaling

Satoshi Takahashi, Rintaro Noro, Masahiro Seike, Chao Zeng, Masaru Matsumoto, Akiko Yoshikawa, Shinji Nakamichi, Teppei Sugano, Mariko Hirao, Kuniko Matsuda …

International Journal of Molecular Sciences, 22(8) 4005-4005, Apr 13, 2021 Peer-reviewed
Association analysis of repetitive elements and R-loop formation across species

12(3), Jan, 2021 Peer-reviewedLead authorCorresponding author
Detection and Characterization of Ribosome-Associated Long Noncoding RNAs

Chao Zeng, Michiaki Hamada

Methods in Molecular Biology, 2254 179-194, 2021 Peer-reviewedInvited
RNA-Seq Analysis Reveals Localization-Associated Alternative Splicing across 13 Cell Lines

Chao Zeng, Michiaki Hamada

Genes, 11(7) 820, Jul, 2020 Peer-reviewedLead authorCorresponding author
Identifying sequence features that drive ribosomal association for lncRNA.

Chao Zeng, Michiaki Hamada

BMC genomics, 19(Suppl 10) 906-906, Dec 31, 2018 Peer-reviewed
Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data

Chao Zeng, Tsukasa Fukunaga, Michiaki Hamada

BMC Genomics, 19(414), May, 2018 Peer-reviewedLead authorCorresponding author
Obstacle Avoidance and Path Planning Based on S-Type Double-Arc Insertion Method

Xiao-tong Hu, Chao Zeng

2010 International Conference on Computational Intelligence and Software Engineering, Sep, 2010 Peer-reviewedCorresponding author

Misc.

ドライバー遺伝子異常肺癌の薬剤耐性機序における長鎖ノンコーディングRNAの意義

高橋聡, 野呂林太郎, 吉川明子, 中道真仁, 菅野哲平, 松本優, 武内進, 平尾真季子, 松田久仁子, Zeng Chao …

日本呼吸器学会誌, 9(増刊) 177-177, Aug, 2020

Presentations

Landscape of semi-extractable RNAs across five human cell lines

Chao Zeng, Takeshi Chujo, Tetsuro Hirose, Michiaki Hamada

第24回日本RNA学会年会, Jul 7, 2023
Bioinformatic approaches for understanding RNA reincarnation

Chao Zeng, Masahiro Onoguchi, Michiaki Hamada

第43回日本分子生物学会, Dec 2, 2020
Identification and characterisation of ribosome-associated lncRNAs in human and mouse

Chao Zeng, Michiaki Hamada

RNA bioinformatics, Sep 9, 2019
Identifying sequence features that drive ribosomal association for lncRNA

Chao Zeng, Michiaki Hamada

The 29th International Conference on Genome Informatics(GIW2018), Dec 3, 2018
A comprehensive analysis of the effects of alternative splicing on RNA localization in human

Chao Zeng, Michiaki Hamada

第7回生命医薬情報学連合大会(IIBMP2018), Sep 19, 2018
Integrative analysis of multiple ribosome profiling datasets reveals widespread lncRNA-ribosome interaction in mammals

Chao Zeng, Michiaki Hamada

第6回生命医薬情報学連合大会(IIBMP2017), Sep 27, 2017
Mapping and Aligning PacBio RNA-seq Data

Chao Zeng, Hiroaki Iwata, Natsuhiro Ichinose, Tetsushi Yada, Osamu Gotoh

The Asian Young Researchers Conference on Computational and Omics Biology (AYRCOB), Dec 20, 2012

Professional Memberships

Research Projects

Overview and Systematic Understanding of Biological Phase Separation Based on RNA-Centric Molecular Networks

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (A), Japan Society for the Promotion of Science, Apr, 2023 - Mar, 2026
Identification of repetitive elements involving genome regulation

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, 2022 - Mar, 2025
RNA品質管理機構によるイントロン-エクソン化RNA生成と癌維持機構への関与

科学研究費助成事業, 挑戦的研究(萌芽), 日本学術振興会, Jul, 2021 - Mar, 2023

谷上賢瑞, 曽超
Identification and characterization of lncRNAs involved in genetic compensation

科学研究費助成事業若手研究, 若手研究, 日本学術振興会, Apr, 2020 - Mar, 2022

曽超

Profile Information

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Research History

Education

Awards

Papers

Misc.

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