Faculty Profiles - ISHIBASHI Toyotaka | The Hong Kong University of Science and Technology

Toyotaka ISHIBASHI

DSc in Applied Biological Science
Tokyo University of Science, 2005

Associate Professor
Division of Life Science

(852) 3469 2238
toyotaka@ust.hk
Room 5509
Personal Web

ORCID

0000-0001-8015-2319

Scopus ID

7401772664

Research Interest Publications Projects Teaching Assignment RPG Supervision Space used

Research Interest

Chromatin structure
Biophysics
Transcription dynamics

Publications

All Years 74 2024 3 2023 1 2022 1 2021 3 2020 5 2019 2 2018 59

2024 3

Formation of destabilized nucleosome core particles by spermatogenesis-specific histone variant H2BFWT and its infertility-associated mutant H2BFWT-H100R: Insights from single-molecule optical tweezers and cryo-electron microscopy

Biophysical Journal, v. 123, (3, Supplement 1), February 2024, article number 230A
Pang, Yu Hin; Ding, Dongbo; Deng, Mingxi; Nguyen, Thi Thuy; Sun, Xulun; Liu, Yue; Yan, Yan; Ishibashi, Toyotaka
Conference paper

Structural and Biophysical Characterizations of the Destabilized Nucleosomes Formed by the Spermatogonial-specific Histone H2BFWT and Pathological Mutant H2BFWT-H100R

Pang, Yu Hin; Ding, Dongbo; Nguyen, Thi Thuy; Liu, Yue; Ishibashi, Toyotaka
Conference paper

The histone variant H2B.W2 destabilizes nucleosomes through the a2 residues D85 and Q101

Bai, Xinpeng; Nguyen, Thi Thuy; Ding, Dongbo; Pang, Yu Hin; Ishibashi, Toyotaka
Conference paper

2023 1

Synergism between CMG helicase and leading strand DNA polymerase at replication fork

Nature Communications, v. 14, (1), September 2023, article number 5849
Xu, Zhichun; Feng, Jianrong; Yu, Daqi; Huo, Yunjing; Ma, Xiaohui; Lam, Wai Hei; Liu, Zheng; Li, Xiang David; Ishibashi, Toyotaka; Dang, Shangyu; Zhai, Yuanliang
Article

2022 1

Detection of Structural Variations and Fusion Genes in Breast Cancer Samples Using Third-Generation Sequencing

Frontiers in Cell and Developmental Biology, v. 10, 13 April 2022, article number 854640
Hu, Taobo; Lian, Sheng; Shi, Jiandong; Ishibashi, Toyotaka; Yu, Weichuan; Wang, Yang; Peng, I-Feng; Wang, Shu
Article

2021 3

Primate-specific histone variants

Genome, v. 64, (4), April 2021, p. 337-346
Ding, Dongbo; Nguyen, Thi Thuy; Pang, Yu Hin; Ishibashi, Toyotaka
Article

RECQL5 KIX domain splicing isoforms have distinct functions in transcription repression and DNA damage response

DNA Repair, v. 97, January 2021, article number 103007
Ding, Dongbo; Sun, Xulun; Pang, Yu Hin; An, Liwei; Huen, Michael S. Y.; Hu, Taobo; Ishibashi, Toyotaka
Article

The elevated transcription of ADAM19 by the oncohistone H2BE76K contributes to oncogenic properties in breast cancer

Journal of Biological Chemistry, v. 296, January 2021, article number 100374
Kang, Tze Zhen Evangeline; Zhu, Lina; Yang, Du; Ding, Dongbo; Zhu, Xiaoxuan; Wan, Yi Ching Esther; Liu, Jiaxian; Ramakrishnan, Saravanan; Chan, Landon Long; Chan, Siu Yuen; Wang, Xin; Gan, Haiyun; Han, Junhong; Ishibashi, Toyataka; Li, Qing; Chan, Kui Ming
Article

2020 5

Cancer-associated histone mutation H2BG53D disrupts DNA–histone octamer interaction and promotes oncogenic phenotypes

Signal Transduction and Targeted Therapy, v. 5, (1), March 2020, article number 27
Wan, Yi Ching Esther; Leung, Tsz Chui Sophia; Ding, Dongbo; Sun, Xulun; Liu, Jiaxian; Zhu, Lina; Kang, Tze Zhen Evangeline; Yang, Du; Zhang, Yuchen; Zhang, Jitian; Qian, Chengmin; Huen, Michael Shing Yan; Li, Qing; Chow, Maggie Zi Ying; Zheng, Zongli; Han, Junhong; Goel, Ajay; Wang, Xin; Ishibashi, Toyotaka; Chan, Kui Ming
Article

Histone H4 variant, H4G, drives ribosomal RNA transcription and breast cancer cell proliferation by loosening nucleolar chromatin structure

Journal of Cellular Physiology, v. 235, (12), 1 December 2020, p. 9601-9608
Pang, Yu Hin; Sun, Xulun; Ausio, Juan; Ishibashi, Toyotaka
Article

Screen Identifies DYRK1B Network as Mediator of Transcription Repression on Damaged Chromatin

Proceedings of the National Academy of Sciences of the United States of America, v. 117, (29), July 2020, p. 17019-17030
Dong, Chao; West, Kirk L.; Tan, Xin Yi; Li, Junshi; Ishibashi, Toyotaka; Yu, Cheng-han; Sy, Shirley M. H.; Leung, Justin W. C.; Huen, Michael S. Y.
Article

Semisynthesis of site-specifically succinylated histone reveals that succinylation regulates nucleosome unwrapping rate and DNA accessibility

Nucleic Acids Research, v. 48, (17), 25 September 2020, p. 9538-9549
Jing, Yihang; Ding, Dongbo; Tian, Gaofei; Kwan, Ka Chun Jonathan; Liu, Zheng; Ishibashi, Toyotaka; Li, Xiang David
Article

The H2BG53D oncohistone directly upregulates ANXA3 transcription and enhances cell migration in pancreatic ductal adenocarcinoma

Signal Transduction and Targeted Therapy, v. 5, (1), December 2020, article number 106
Wan, Yi Ching Esther; Liu, Jiaxian; Zhu, Lina; Kang, Tze Evangeline Zhen; Zhu, Xiaoxuan; Lis, John; Ishibashi, Toyotaka; Danko, G Charles; Wang, Xin; Chan, Kui Ming
Article

2019 2

A Novel Histone H4 Variant H4G Regulates rDNA Transcription in Breast Cancer

Nucleic Acids Research, v. 47, (16), September 2019, p. 8399-8409
Long, Mengping; Sun, Xulun; Shi, Wenjin; An, Yanru; Leung, Tsz Chui Sophia; Ding, Dongbo; Cheema, Manjinder S.; MacPherson, Nicol; Nelson, Christopher J.; Ausio, Juan; Yan, Yan; Ishibashi, Toyotaka
Article

Single cell transcriptomic landscapes of pattern formation, proliferation and growth in Drosophila wing imaginal discs

Development, v. 146, (18), September 2019, article number dev179754, p. 1-10
Deng, Mingxi; Wang, Ying; Zhang, Lina; Yang, Yang; Huang, Shengshuo; Wang, Jiguang; Ge, H.; Ishibashi, Toyotaka; Yan, Yan
Article

2018 2

Site-Specific Installation of Succinyl Lysine Analog into Histones Reveals the Effect of H2BK34 Succinylation on Nucleosome Dynamics

Cell Chemical Biology, v.25, (2), Febrary 2018, p. 166-174.e7
Jing, Yihang; Liu, Zheng; Tian, Gaofei; Bao, Xiucong; Ishibashi, Toyotaka; Li, Xiang David
Article

TEFM Enhances Transcription Elongation by Modifying mtRNAP Pausing Dynamics

Biophysical Journal, v. 115, (12), December 2018, p. 2295-2300
Yu, Hongwu; Xue, Cheng; Long, Mengping; Jia, Huiqiang; Xue, Guosheng; Du, Shengwang; Coello, Yves; Ishibashi, Toyotaka
Article

2017 6

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

Development, v. 144, (12), June 2017, p. 2153-2164
An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Article

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Conference paper

Apical Constriction is Driven by a Pulsatile Apical Myosin Network in Delaminating Drosophila Neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Conference paper

Characterization of Nucleolar-localized H4 Histone Variant, H4G

Molecular Biology of the Cell, v. 28, 2017
Long, Mengping; Sun, Xulun; Shi, Wenjin; Ishibashi, Toyotaka
Conference paper

Effects of TEFM on the Regulation of Transcription Elongation by Human Mitochondrial RNA Polhymerase

Xue, Cheng; Yu, Hongwu; Long, Mengping; Ishibashi, Toyotaka
Conference paper

Molecular and cellular basis of Drosophila neuroblast delamination

Mechanisms of Development, v. 145, (Suppl.), July 2017, article number PS5.48, p. S158
An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Yan, Yan
Conference paper

2016 4

Poly(ADP-ribosyl)ation-dependent Transient Chromatin Decondensation and Histone Displacement following Laser Microirradiation

Journal of biological chemistry, v. 291, (4), January 2016, p. 1789-1802
Strickfaden, Hilmar; McDonald, Darin; Kruhlak, Michael J.; Haince, Jean-Francois; Th'ng, John P. H.; Rouleau, Michele; Ishibashi, Toytaka; Corry, Gareth N.; Ausio, Juan; Underhill, D. Alan; Pokier, Guy G.; Hendzel, Michael J.
Article

Histone Variants and Posttranslational Modifications in Spermatogenesis and Infertility

Epigenetic Biomarkers and Diagnostics / Edited by José Luis García-Giménez. USA : Academic Press, 2016, p. 479-496, Ch. 24
Ausio, Juan; Zhang, Yinan; Ishibashi, Toyotaka
Book chapter

Quantitative analysis of myosin-driven apical constriction in delaminating neuroblasts

An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Chris, Doe; Yan, Yan
Conference paper

2014 3

Molecular Mechanisms of Transcription through Single-Molecule Experiments

Chemical Reviews, v. 114, (6), March 2014, p. 3203-3223
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Bintu, Lacramioara; Bustamante, Carlos
Article

Transcription factors IIS and IIF enhance transcription efficiency by differentially modifying RNA polymerase pausing dynamics

Biophysics and Computational Biology, v. 111, (9), March 2014, p. 3419-3424
Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Coello, Yves; Lionberger, Troy A.; Lubkowska, Lucyna; Ponticelli, Alfred S.; Kashlev, Mikhail; Bustamante, Carlos
Article

Complete Dissection of Transcription Elongation Reveals Slow Translocation of RNA Polymerase II in a Linear Ratchet Mechanism

Biophysical Journal, v. 106, (2), January 2014, p. 485a-486a, Supplement 1
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kahlev, Mikhail; Bustamante, Carlos J.
Conference paper

2013 3

Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism

eLife, v. 2013, (2), September 2013, article number e00971
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos J.
Article

A Quantitative Kinetic Model of Eukaryotic Transcription Elongation from Single-Molecule Experiments

Biophysical Journal, v. 104, (2), January 2013, p. 364A-364A
Dangkulwanich, Manchuta; Liu, Shixin; Ishibashi, Toyotaka; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Conference paper

Dissecting the Nucleosomal Barrier to Transcription

Biophysical Journal, v. 102, (3), January 2013, p. 284A-284A
Ishibashi, Toyotaka; Bintu, Lacramioara; Dangkulwanich, Manchuta; Wu, Gloria; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Conference paper

2012 2

Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases

Proceedings of the National Academy of Sciences of the United States of America, v. 109, (23), 2012, p. 8948-8953
Zamft, B.; Bintu, L.; Ishibashi, Toyotaka; Bustamante, C.
Article

Nucleosomal Elements that Control the Topography of the Barrier to Transcription

Cell, v. 151, (4), November 2012, p. 738-749
Bintu, Lacramioara; Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Wu, Yueh-Yi; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Article

2010 3

H2A.Bbd: an X-chromosome-encoded histone involved in mammalian spermiogenesis

Nucleic acids research, v. 38, (6), April 2010, p. 1780-1789
Ishibashi, Toyotaka; Li, Andra; Eirin-Lopez, Jose M.; Zhao, Ming; Missiaen, Kristal; Abbott, D. Wade; Meistrich, Marvin; Hendzel, Michael J.; Ausio, Juan
Article

Phosphorylation of Histone H2A.X by DNA-dependent Protein Kinase Is Not Affected by Core Histone Acetylation, but It Alters Nucleosome Stability and Histone H1 Binding

Journal of biological chemistry, v. 285, (23), June 2010, p. 17778-17788
Li, Andra; Yu, Yaping; Lee, Sheng-Chun; Ishibashi, Toyotaka; Lees-Miller, Susan P.; Ausio, Juan
Article

Histone variants. signaling or structural modules

Handbook of Cell Signaling, 2/e / Edited by Ralph A. Bradshaw and Edward A. Dennis. Elsevier Inc., v.3, 2010, p. 2409-2425, Chapter 289
Ishibashi, Tototaka; Li, A.; Ausió, J.
Book chapter

2009 6

Acetylation of vertebrate H2A.Z and its effect on the structure of the nucleosome

Biochemistry, v. 48, (22), 2009, p. 5007-5017
Ishibashi, T.; Dryhurst, D.; Rose, K.L.; Shabanowitz, J.; Hunt, D.F.; Ausió, J.
Article

Characterization of the histone H2A.Z-1 and H2A.Z-2 isoforms in vertebrates

BMC biology, v. 14, (7), December 2009, p. 86
Dryhurst, Deanna; Ishibashi, Toyotaka; Rose, Kristie L.; Eirin-Lopez, Jose M.; McDonald, Darin; Silva-Moreno, Begonia; Veldhoen, Nik; Helbing, Caren C.; Hendzel, Michael J.; Shabanowitz, Jeffrey; Hunt, Donald F.; Ausio, Juan
Article

H2A.Z and H3.3 histone variants affect nucleosome structure: Biochemical and biophysical studies

Biochemistry, v. 48, (46), 2009, p. 10852-10857
Thakar, A.; Gupta, P.; Ishibashi, T.; Finn, R.; Silva-Moreno, B.; Uchiyama, S.; Fukui, K.; Tomschik, M.; Ausio, J.; Zlatanova, J.
Article

New developments in post-translational modifications and functions of histone H2A variants

Biochemistry and cell biology, v. 87, (1), 2009, p. 7-17
Thambirajah, A.A.; Li, A.; Ishibashi, T.; Ausió, J.
Article

The evolutionary differentiation of two histone H2A.Z variants in chordates (H2A.Z-1 and H2A.Z-2) is mediated by a stepwise mutation process that affects three amino acid residues

BMC evolutionary biology, v. 9, (1), 2009, article number 31
EirínLópez, J.M.; González-Romero, R.; Dryhurst, D.; Ishibashi, T.; Ausió, J.
Article

The multi-replication protein A (RPA) system - A new perspective

The FEBS journal, v. 276, (4), 2009, p. 943-963
Sakaguchi, K.; Ishibashi, T.; Uchiyama, Y.; Iwabata, K.
Article

2008 3

H2A.Bbd: A quickly evolving hypervariable mammalian histone that destabilizes nucleosomes in an acetylation-independent way

The FASEB journal, v. 22, (1), 2008, p. 316-326
EirínLópez, J.M.; Ishibashi, Toyotaka; Ausió, J.
Article

MBD4-mediated glycosylase activity on a chromatin template is enhanced by acetylation

Molecular and cellular biology, v. 28, (15), 2008, p. 4734-4744
Ishibashi, T.; So, K.; Cupples, C.G.; Ausió, J.
Article

MeCP2 preferentially binds to methylated linker DNA in the absence of the terminal tail of histone H3 and independently of histone acetylation

FEBS letters, v. 582, (7), 2008, p. 1157-1162
Ishibashi, Toyotaka; Thambirajah, A.A.; Ausió, J.
Article

2007 1

Probasin promoter assembles into a strongly positioned nucleosome that permits androgen receptor binding

Molecular and Cellular Endocrinology, v. 268, March 2007, p. 10-19
Maffey, Allison H.; Ishibashi, Toyotaka; He, Cheng; Wang, Xiaoying; White, Adrienne R.; Hendy, Stephen C.; Nelson, Colleen C.; Rennie, Paul S.; Ausio, Juan
Article

2006 6

A higher plant has three different types of RPA heterotrimeric complex

The Journal of biochemistry, v. 139, (1), 2006, p. 99-104
Ishibashi, Toyotaka; Kimura, S.; Sakaguchi, K.
Article

A novel protein refolding method using a zeolite

Analytical biochemistry, v. 348, (2), 2006, p. 307-314
Chiku, H.; Kawai, A.; Ishibashi, Toyotaka; Takehara, M.; Yanai, T.; Mizukami, F.; Sakaguchi, K.
Article

Characterization of T-DNA insertion mutants and RNAi silenced plants of Arabidopsis thaliana UV-damaged DNA binding protein 2 (AtUV-DDB2)

Plant molecular biology, v. 61, (1-2), 2006, p. 227-240
Koga, A.; Ishibashi, Toyotaka; Kimura, S.; Uchiyama, Y.; Sakaguchi, K.
Article

DNA repair mechanisms in UV-B tolerant plants

JARQ, v. 40, (2), April 2006, p. 107-113
Ishibashi, Toyotaka; Kimura, Seisuke; Furukawa, Tornoyuki; Sakaguchi, Kengo
Article

H2A.Z stabilizes chromatin in a way that is dependent on core histone acetylation

Journal of biological chemistry, v. 281, (29), July 2006, p. 20036-20044
Thambirajah, Anita A.; Dryhurst, Deanna; Ishibashi, Toyotaka; Li, Andra; Maffey, Allison H.; Ausio, Juan
Article

Higher plant RecA-like protein is homologous to RadA

DNA repair, v. 5, (1), 2006, p. 80-88
Ishibashi, Toyotaka; Isogai, Minako; Kiyohara, Hiroyuki; Hosaka, Masahiro; Chiku, Hiroyuki; Koga, Asami; Yamamoto, Taichi; Uchiyama, Yukinobu; Mori, Yoko; Hashimoto, Junji; Ausió, Juan Thomas; Kimura, Seisuke; Sakaguchi, Kengo
Article

2005 5

Characterization of the origin recognition complex (ORC) from a higher plant, rice (Oryza sativa L.)

Gene, v. 353, (1), 2005, p. 23-30
Mori, Y.; Yamamoto, T.; Sakaguchi, N.; Ishibashi, Toyotaka; Furukawa, T.; Kadota, Y.; Kuchitsu, K.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

DNA repair in higher plants

生化学, v. 77, (2), 2005, p. 113-123
Kimura, S.; Ishibashi, T.; Yamamoto, T.; Sakaguchi, K.
Article

Interaction between proliferating cell nuclear antigen (PCNA) and a DnaJ induced by DNA damage

Journal of Plant Research, v. 118, (2), 2005, p. 91-97
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Ueda, T.; Ando, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

Plastid DNA polymerases from higher plants, Arabidopsis thaliana

Biochemical and biophysical research communications, v. 334, (1), 2005, p. 43-50
Mori, Y.; Kimura, S.; Saotome, A.; Kasai, N.; Sakaguchi, N.; Uchiyama, Y.; Ishibashi, Toyotaka; Yamamoto, T.; Chiku, H.; Sakaguchi, K.
Article

Two types of replication protein A in seed plants: Characterization of their functions in vitro and in vivo

The FEBS journal, v. 272, (13), 2005, p. 3270-3281
Ishibashi, Toyotaka; Koga, A.; Yamamoto, T.; Uchiyama, Y.; Mori, Y.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

2004 5

Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo and enhances the activity of ubiquitin conjugating enzymes

Genes & development, v. 18, (17), 2004, p. 2172-2181
Yanagawa, Y.; Sullivan, J.A.; Komatsu, S.; Gusmaroli, G.; Suzuki, G.; Yin, J.; Ishibashi, Toyotaka; Saijo, Y.; Rubio, V.; Kimura, S.; Wang, J.; Deng, X.W.
Article

Characterization of Rad6 from a higher plant, rice (Oryza sativa L.) and its interaction with Sgt1, a subunit of the SCF ubiquitin ligase complex

Biochemical and biophysical research communications, v. 314, (2), 2004, p. 434-439
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Sakaguchi, N.; Furukawa, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

Degradation of proliferating cell nuclear antigen by 26S proteasome in rice (Oryza sativa L.)

Planta, v. 218, (4), 2004, p. 640-646
Yamamoto, T.; Kimura, S.; Mori, Y.; Oka, M.; Ishibashi, Toyotaka; Yanagawa, Y.; Nara, T.; Nakagawa, H.; Hashimoto, J.; Sakaguchi, K.
Article

DNA repair in higher plants; photoreactivation is the major DNA repair pathway in non-proliferating cells while excision repair (nucleotide excision repair and base excision repair) is active in proliferating cells

Nucleic acids research, v. 32, (9), 2004, p. 2760-2767
Kimura, S.; Tahira, Y.; Ishibashi, Tototaka; Mori, Y.; Mori, T.; Hashimoto, J.; Sakaguchi, K.
Article

Plant DNA polymerase λ, a DNA repair enzyme that functions in plant meristematic and meiotic tissues

European journal of biochemistry, v. 271, (13), 2004, p. 2799-2807
Uchiyama, Y.; Kimura, S.; Yamamoto, T.; Ishibashi, Toyotaka; Sakaguchi, K.
Article

2003 5

Characterization of all the subunits of replication factor C from a higher plant, rice (Oryza sativa L.), and their relation to development

Plant molecular biology, v. 53, (1-2), 2003, p. 15-25
Furukawa, T.; Ishibashi, Toyotaka; Kimura, S.; Tanaka, H.; Hashimoto, J.; Sakaguchi, K.
Article

Interaction between proliferating cell nuclear antigen and JUN-activation-domain-binding protein 1 in the meristem of rice, Oryza sativa L.

Planta, v. 217, (2), 2003, p. 175-183
Yamamoto, T.; Kimura, S.; Mori, Y.; Uchiyama, Y.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.
Article

OsSEND-1: A new RAD2 nuclease family member in higher plants

Plant molecular biology, v. 51, (1), 2003, p. 59-70
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Mori, Y.; Hashimoto, J.; Sakaguchi, K.
Article

Plant-specific regulation of replication protein A2 (OsRPA2) from rice during the cell cycle and in response to ultraviolet light exposure

Planta, v. 217, (3), 2003, p. 457-465
Marwedel, T.; Ishibashi, Toyotaka; Lorbiecke, R.; Jacob, S.; Sakaguchi, K.; Sauter, M.
Article

Rice UV-damaged DNA binding protein homologues are most abundant in proliferating tissues

Gene, v. 308, (1-2), 2003, p. 79-87
Ishibashi, Toyotaka; Kimura, S.; Yamamoto, T.; Furukawa, T.; Takata, K.I.; Uchiyama, Y.; Hashimoto, J.; Sakaguchi, K.
Article

2002 2

A novel DNA polymerase homologous to Escherichia coli DNA polymerase I from a higher plant, rice (Oryza sativa L.)

Nucleic acids research, v. 30, (7), 2002, p. 1585-1592
Kimura, S.; Uchiyama, Y.; Kasai, N.; Namekawa, S.; Saotome, A.; Ueda, T.; Ando, T.; Ishibashi, Toyotaka; Oshige, M.; Furukawa, T.; Yamamoto, T.; Hashimoto, J.; Sakaguchi, K.
Article

Characterization of DNA polymerase δ from a higher plant, rice (Oryza sativa L.)

Gene, v. 295, (1), 2002, p. 19-26
Uchiyama, Y.; Hatanaka, M.; Kimura, S.; Ishibashi, Toyotaka; Ueda, T.; Sakakibara, Y.; Matsumoto, T.; Furukawa, T.; Hashimoto, J.; Sakaguchi, K.
Article

2001 2

A plant homologue of 36 kDa subunit of replication factor C: Molecular cloning and characterization

Plant science, v. 161, (1), 2001, p. 99-106
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.
Article

Two types of replication protein A 70 kDa subunit in rice, Oryza sativa: Molecular cloning, characterization, and cellular & tissue distribution

Gene, v. 272, (1-2), 2001, p. 335-343
Ishibashi, Toyotaka; Kimura, S.; Furukawa, T.; Hatanaka, M.; Hashimoto, J.; Sakaguchi, K.
Article

2000 1

Molecular cloning and characterization of a plant homologue of the origin recognition complex 1 (ORC1)

Plant science, v. 158, (1-2), 2000, p. 33-39
Kimura, S.; Ishibashi, Toyotaka; Hatanaka, M.; Sakakibara, Y.; Hashimoto, J.; Sakaguchi, K.
Article

Conference paper 3

Formation of destabilized nucleosome core particles by spermatogenesis-specific histone variant H2BFWT and its infertility-associated mutant H2BFWT-H100R: Insights from single-molecule optical tweezers and cryo-electron microscopy

Biophysical Journal, v. 123, (3, Supplement 1), February 2024, article number 230A
Pang, Yu Hin; Ding, Dongbo; Deng, Mingxi; Nguyen, Thi Thuy; Sun, Xulun; Liu, Yue; Yan, Yan; Ishibashi, Toyotaka

Structural and Biophysical Characterizations of the Destabilized Nucleosomes Formed by the Spermatogonial-specific Histone H2BFWT and Pathological Mutant H2BFWT-H100R

Pang, Yu Hin; Ding, Dongbo; Nguyen, Thi Thuy; Liu, Yue; Ishibashi, Toyotaka

The histone variant H2B.W2 destabilizes nucleosomes through the a2 residues D85 and Q101

Bai, Xinpeng; Nguyen, Thi Thuy; Ding, Dongbo; Pang, Yu Hin; Ishibashi, Toyotaka

Article 1

Synergism between CMG helicase and leading strand DNA polymerase at replication fork

Nature Communications, v. 14, (1), September 2023, article number 5849
Xu, Zhichun; Feng, Jianrong; Yu, Daqi; Huo, Yunjing; Ma, Xiaohui; Lam, Wai Hei; Liu, Zheng; Li, Xiang David; Ishibashi, Toyotaka; Dang, Shangyu; Zhai, Yuanliang

Article 1

Detection of Structural Variations and Fusion Genes in Breast Cancer Samples Using Third-Generation Sequencing

Frontiers in Cell and Developmental Biology, v. 10, 13 April 2022, article number 854640
Hu, Taobo; Lian, Sheng; Shi, Jiandong; Ishibashi, Toyotaka; Yu, Weichuan; Wang, Yang; Peng, I-Feng; Wang, Shu

Article 3

Primate-specific histone variants

Genome, v. 64, (4), April 2021, p. 337-346
Ding, Dongbo; Nguyen, Thi Thuy; Pang, Yu Hin; Ishibashi, Toyotaka

RECQL5 KIX domain splicing isoforms have distinct functions in transcription repression and DNA damage response

DNA Repair, v. 97, January 2021, article number 103007
Ding, Dongbo; Sun, Xulun; Pang, Yu Hin; An, Liwei; Huen, Michael S. Y.; Hu, Taobo; Ishibashi, Toyotaka

The elevated transcription of ADAM19 by the oncohistone H2BE76K contributes to oncogenic properties in breast cancer

Journal of Biological Chemistry, v. 296, January 2021, article number 100374
Kang, Tze Zhen Evangeline; Zhu, Lina; Yang, Du; Ding, Dongbo; Zhu, Xiaoxuan; Wan, Yi Ching Esther; Liu, Jiaxian; Ramakrishnan, Saravanan; Chan, Landon Long; Chan, Siu Yuen; Wang, Xin; Gan, Haiyun; Han, Junhong; Ishibashi, Toyataka; Li, Qing; Chan, Kui Ming

Article 5

Cancer-associated histone mutation H2BG53D disrupts DNA–histone octamer interaction and promotes oncogenic phenotypes

Signal Transduction and Targeted Therapy, v. 5, (1), March 2020, article number 27
Wan, Yi Ching Esther; Leung, Tsz Chui Sophia; Ding, Dongbo; Sun, Xulun; Liu, Jiaxian; Zhu, Lina; Kang, Tze Zhen Evangeline; Yang, Du; Zhang, Yuchen; Zhang, Jitian; Qian, Chengmin; Huen, Michael Shing Yan; Li, Qing; Chow, Maggie Zi Ying; Zheng, Zongli; Han, Junhong; Goel, Ajay; Wang, Xin; Ishibashi, Toyotaka; Chan, Kui Ming

Histone H4 variant, H4G, drives ribosomal RNA transcription and breast cancer cell proliferation by loosening nucleolar chromatin structure

Journal of Cellular Physiology, v. 235, (12), 1 December 2020, p. 9601-9608
Pang, Yu Hin; Sun, Xulun; Ausio, Juan; Ishibashi, Toyotaka

Screen Identifies DYRK1B Network as Mediator of Transcription Repression on Damaged Chromatin

Proceedings of the National Academy of Sciences of the United States of America, v. 117, (29), July 2020, p. 17019-17030
Dong, Chao; West, Kirk L.; Tan, Xin Yi; Li, Junshi; Ishibashi, Toyotaka; Yu, Cheng-han; Sy, Shirley M. H.; Leung, Justin W. C.; Huen, Michael S. Y.

Semisynthesis of site-specifically succinylated histone reveals that succinylation regulates nucleosome unwrapping rate and DNA accessibility

Nucleic Acids Research, v. 48, (17), 25 September 2020, p. 9538-9549
Jing, Yihang; Ding, Dongbo; Tian, Gaofei; Kwan, Ka Chun Jonathan; Liu, Zheng; Ishibashi, Toyotaka; Li, Xiang David

The H2BG53D oncohistone directly upregulates ANXA3 transcription and enhances cell migration in pancreatic ductal adenocarcinoma

Signal Transduction and Targeted Therapy, v. 5, (1), December 2020, article number 106
Wan, Yi Ching Esther; Liu, Jiaxian; Zhu, Lina; Kang, Tze Evangeline Zhen; Zhu, Xiaoxuan; Lis, John; Ishibashi, Toyotaka; Danko, G Charles; Wang, Xin; Chan, Kui Ming

Article 2

A Novel Histone H4 Variant H4G Regulates rDNA Transcription in Breast Cancer

Nucleic Acids Research, v. 47, (16), September 2019, p. 8399-8409
Long, Mengping; Sun, Xulun; Shi, Wenjin; An, Yanru; Leung, Tsz Chui Sophia; Ding, Dongbo; Cheema, Manjinder S.; MacPherson, Nicol; Nelson, Christopher J.; Ausio, Juan; Yan, Yan; Ishibashi, Toyotaka

Single cell transcriptomic landscapes of pattern formation, proliferation and growth in Drosophila wing imaginal discs

Development, v. 146, (18), September 2019, article number dev179754, p. 1-10
Deng, Mingxi; Wang, Ying; Zhang, Lina; Yang, Yang; Huang, Shengshuo; Wang, Jiguang; Ge, H.; Ishibashi, Toyotaka; Yan, Yan

Article 2

Site-Specific Installation of Succinyl Lysine Analog into Histones Reveals the Effect of H2BK34 Succinylation on Nucleosome Dynamics

Cell Chemical Biology, v.25, (2), Febrary 2018, p. 166-174.e7
Jing, Yihang; Liu, Zheng; Tian, Gaofei; Bao, Xiucong; Ishibashi, Toyotaka; Li, Xiang David

TEFM Enhances Transcription Elongation by Modifying mtRNAP Pausing Dynamics

Biophysical Journal, v. 115, (12), December 2018, p. 2295-2300
Yu, Hongwu; Xue, Cheng; Long, Mengping; Jia, Huiqiang; Xue, Guosheng; Du, Shengwang; Coello, Yves; Ishibashi, Toyotaka

Article 1

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

Development, v. 144, (12), June 2017, p. 2153-2164
An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan

Conference paper 5

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan

Apical Constriction is Driven by a Pulsatile Apical Myosin Network in Delaminating Drosophila Neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan

Characterization of Nucleolar-localized H4 Histone Variant, H4G

Molecular Biology of the Cell, v. 28, 2017
Long, Mengping; Sun, Xulun; Shi, Wenjin; Ishibashi, Toyotaka

Effects of TEFM on the Regulation of Transcription Elongation by Human Mitochondrial RNA Polhymerase

Xue, Cheng; Yu, Hongwu; Long, Mengping; Ishibashi, Toyotaka

Molecular and cellular basis of Drosophila neuroblast delamination

Mechanisms of Development, v. 145, (Suppl.), July 2017, article number PS5.48, p. S158
An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Yan, Yan

Article 1

Poly(ADP-ribosyl)ation-dependent Transient Chromatin Decondensation and Histone Displacement following Laser Microirradiation

Journal of biological chemistry, v. 291, (4), January 2016, p. 1789-1802
Strickfaden, Hilmar; McDonald, Darin; Kruhlak, Michael J.; Haince, Jean-Francois; Th'ng, John P. H.; Rouleau, Michele; Ishibashi, Toytaka; Corry, Gareth N.; Ausio, Juan; Underhill, D. Alan; Pokier, Guy G.; Hendzel, Michael J.

Book chapter 1

Histone Variants and Posttranslational Modifications in Spermatogenesis and Infertility

Epigenetic Biomarkers and Diagnostics / Edited by José Luis García-Giménez. USA : Academic Press, 2016, p. 479-496, Ch. 24
Ausio, Juan; Zhang, Yinan; Ishibashi, Toyotaka

Conference paper 2

Quantitative analysis of myosin-driven apical constriction in delaminating neuroblasts

An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Chris, Doe; Yan, Yan

Article 2

Molecular Mechanisms of Transcription through Single-Molecule Experiments

Chemical Reviews, v. 114, (6), March 2014, p. 3203-3223
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Bintu, Lacramioara; Bustamante, Carlos

Transcription factors IIS and IIF enhance transcription efficiency by differentially modifying RNA polymerase pausing dynamics

Biophysics and Computational Biology, v. 111, (9), March 2014, p. 3419-3424
Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Coello, Yves; Lionberger, Troy A.; Lubkowska, Lucyna; Ponticelli, Alfred S.; Kashlev, Mikhail; Bustamante, Carlos

Conference paper 1

Complete Dissection of Transcription Elongation Reveals Slow Translocation of RNA Polymerase II in a Linear Ratchet Mechanism

Biophysical Journal, v. 106, (2), January 2014, p. 485a-486a, Supplement 1
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kahlev, Mikhail; Bustamante, Carlos J.

Article 1

Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism

eLife, v. 2013, (2), September 2013, article number e00971
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos J.

Conference paper 2

A Quantitative Kinetic Model of Eukaryotic Transcription Elongation from Single-Molecule Experiments

Biophysical Journal, v. 104, (2), January 2013, p. 364A-364A
Dangkulwanich, Manchuta; Liu, Shixin; Ishibashi, Toyotaka; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos

Dissecting the Nucleosomal Barrier to Transcription

Biophysical Journal, v. 102, (3), January 2013, p. 284A-284A
Ishibashi, Toyotaka; Bintu, Lacramioara; Dangkulwanich, Manchuta; Wu, Gloria; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos

Article 2

Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases

Proceedings of the National Academy of Sciences of the United States of America, v. 109, (23), 2012, p. 8948-8953
Zamft, B.; Bintu, L.; Ishibashi, Toyotaka; Bustamante, C.

Nucleosomal Elements that Control the Topography of the Barrier to Transcription

Cell, v. 151, (4), November 2012, p. 738-749
Bintu, Lacramioara; Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Wu, Yueh-Yi; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos

Article 2

H2A.Bbd: an X-chromosome-encoded histone involved in mammalian spermiogenesis

Nucleic acids research, v. 38, (6), April 2010, p. 1780-1789
Ishibashi, Toyotaka; Li, Andra; Eirin-Lopez, Jose M.; Zhao, Ming; Missiaen, Kristal; Abbott, D. Wade; Meistrich, Marvin; Hendzel, Michael J.; Ausio, Juan

Phosphorylation of Histone H2A.X by DNA-dependent Protein Kinase Is Not Affected by Core Histone Acetylation, but It Alters Nucleosome Stability and Histone H1 Binding

Journal of biological chemistry, v. 285, (23), June 2010, p. 17778-17788
Li, Andra; Yu, Yaping; Lee, Sheng-Chun; Ishibashi, Toyotaka; Lees-Miller, Susan P.; Ausio, Juan

Book chapter 1

Histone variants. signaling or structural modules

Handbook of Cell Signaling, 2/e / Edited by Ralph A. Bradshaw and Edward A. Dennis. Elsevier Inc., v.3, 2010, p. 2409-2425, Chapter 289
Ishibashi, Tototaka; Li, A.; Ausió, J.

Article 6

Acetylation of vertebrate H2A.Z and its effect on the structure of the nucleosome

Biochemistry, v. 48, (22), 2009, p. 5007-5017
Ishibashi, T.; Dryhurst, D.; Rose, K.L.; Shabanowitz, J.; Hunt, D.F.; Ausió, J.

Characterization of the histone H2A.Z-1 and H2A.Z-2 isoforms in vertebrates

BMC biology, v. 14, (7), December 2009, p. 86
Dryhurst, Deanna; Ishibashi, Toyotaka; Rose, Kristie L.; Eirin-Lopez, Jose M.; McDonald, Darin; Silva-Moreno, Begonia; Veldhoen, Nik; Helbing, Caren C.; Hendzel, Michael J.; Shabanowitz, Jeffrey; Hunt, Donald F.; Ausio, Juan

H2A.Z and H3.3 histone variants affect nucleosome structure: Biochemical and biophysical studies

Biochemistry, v. 48, (46), 2009, p. 10852-10857
Thakar, A.; Gupta, P.; Ishibashi, T.; Finn, R.; Silva-Moreno, B.; Uchiyama, S.; Fukui, K.; Tomschik, M.; Ausio, J.; Zlatanova, J.

New developments in post-translational modifications and functions of histone H2A variants

Biochemistry and cell biology, v. 87, (1), 2009, p. 7-17
Thambirajah, A.A.; Li, A.; Ishibashi, T.; Ausió, J.

The evolutionary differentiation of two histone H2A.Z variants in chordates (H2A.Z-1 and H2A.Z-2) is mediated by a stepwise mutation process that affects three amino acid residues

BMC evolutionary biology, v. 9, (1), 2009, article number 31
EirínLópez, J.M.; González-Romero, R.; Dryhurst, D.; Ishibashi, T.; Ausió, J.

The multi-replication protein A (RPA) system - A new perspective

The FEBS journal, v. 276, (4), 2009, p. 943-963
Sakaguchi, K.; Ishibashi, T.; Uchiyama, Y.; Iwabata, K.

Article 3

H2A.Bbd: A quickly evolving hypervariable mammalian histone that destabilizes nucleosomes in an acetylation-independent way

The FASEB journal, v. 22, (1), 2008, p. 316-326
EirínLópez, J.M.; Ishibashi, Toyotaka; Ausió, J.

MBD4-mediated glycosylase activity on a chromatin template is enhanced by acetylation

Molecular and cellular biology, v. 28, (15), 2008, p. 4734-4744
Ishibashi, T.; So, K.; Cupples, C.G.; Ausió, J.

MeCP2 preferentially binds to methylated linker DNA in the absence of the terminal tail of histone H3 and independently of histone acetylation

FEBS letters, v. 582, (7), 2008, p. 1157-1162
Ishibashi, Toyotaka; Thambirajah, A.A.; Ausió, J.

Article 1

Probasin promoter assembles into a strongly positioned nucleosome that permits androgen receptor binding

Molecular and Cellular Endocrinology, v. 268, March 2007, p. 10-19
Maffey, Allison H.; Ishibashi, Toyotaka; He, Cheng; Wang, Xiaoying; White, Adrienne R.; Hendy, Stephen C.; Nelson, Colleen C.; Rennie, Paul S.; Ausio, Juan

Article 6

A higher plant has three different types of RPA heterotrimeric complex

The Journal of biochemistry, v. 139, (1), 2006, p. 99-104
Ishibashi, Toyotaka; Kimura, S.; Sakaguchi, K.

A novel protein refolding method using a zeolite

Analytical biochemistry, v. 348, (2), 2006, p. 307-314
Chiku, H.; Kawai, A.; Ishibashi, Toyotaka; Takehara, M.; Yanai, T.; Mizukami, F.; Sakaguchi, K.

Characterization of T-DNA insertion mutants and RNAi silenced plants of Arabidopsis thaliana UV-damaged DNA binding protein 2 (AtUV-DDB2)

Plant molecular biology, v. 61, (1-2), 2006, p. 227-240
Koga, A.; Ishibashi, Toyotaka; Kimura, S.; Uchiyama, Y.; Sakaguchi, K.

DNA repair mechanisms in UV-B tolerant plants

JARQ, v. 40, (2), April 2006, p. 107-113
Ishibashi, Toyotaka; Kimura, Seisuke; Furukawa, Tornoyuki; Sakaguchi, Kengo

H2A.Z stabilizes chromatin in a way that is dependent on core histone acetylation

Journal of biological chemistry, v. 281, (29), July 2006, p. 20036-20044
Thambirajah, Anita A.; Dryhurst, Deanna; Ishibashi, Toyotaka; Li, Andra; Maffey, Allison H.; Ausio, Juan

Higher plant RecA-like protein is homologous to RadA

DNA repair, v. 5, (1), 2006, p. 80-88
Ishibashi, Toyotaka; Isogai, Minako; Kiyohara, Hiroyuki; Hosaka, Masahiro; Chiku, Hiroyuki; Koga, Asami; Yamamoto, Taichi; Uchiyama, Yukinobu; Mori, Yoko; Hashimoto, Junji; Ausió, Juan Thomas; Kimura, Seisuke; Sakaguchi, Kengo

Article 5

Characterization of the origin recognition complex (ORC) from a higher plant, rice (Oryza sativa L.)

Gene, v. 353, (1), 2005, p. 23-30
Mori, Y.; Yamamoto, T.; Sakaguchi, N.; Ishibashi, Toyotaka; Furukawa, T.; Kadota, Y.; Kuchitsu, K.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.

DNA repair in higher plants

生化学, v. 77, (2), 2005, p. 113-123
Kimura, S.; Ishibashi, T.; Yamamoto, T.; Sakaguchi, K.

Interaction between proliferating cell nuclear antigen (PCNA) and a DnaJ induced by DNA damage

Journal of Plant Research, v. 118, (2), 2005, p. 91-97
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Ueda, T.; Ando, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.

Plastid DNA polymerases from higher plants, Arabidopsis thaliana

Biochemical and biophysical research communications, v. 334, (1), 2005, p. 43-50
Mori, Y.; Kimura, S.; Saotome, A.; Kasai, N.; Sakaguchi, N.; Uchiyama, Y.; Ishibashi, Toyotaka; Yamamoto, T.; Chiku, H.; Sakaguchi, K.

Two types of replication protein A in seed plants: Characterization of their functions in vitro and in vivo

The FEBS journal, v. 272, (13), 2005, p. 3270-3281
Ishibashi, Toyotaka; Koga, A.; Yamamoto, T.; Uchiyama, Y.; Mori, Y.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.

Article 5

Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo and enhances the activity of ubiquitin conjugating enzymes

Genes & development, v. 18, (17), 2004, p. 2172-2181
Yanagawa, Y.; Sullivan, J.A.; Komatsu, S.; Gusmaroli, G.; Suzuki, G.; Yin, J.; Ishibashi, Toyotaka; Saijo, Y.; Rubio, V.; Kimura, S.; Wang, J.; Deng, X.W.

Characterization of Rad6 from a higher plant, rice (Oryza sativa L.) and its interaction with Sgt1, a subunit of the SCF ubiquitin ligase complex

Biochemical and biophysical research communications, v. 314, (2), 2004, p. 434-439
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Sakaguchi, N.; Furukawa, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.

Degradation of proliferating cell nuclear antigen by 26S proteasome in rice (Oryza sativa L.)

Planta, v. 218, (4), 2004, p. 640-646
Yamamoto, T.; Kimura, S.; Mori, Y.; Oka, M.; Ishibashi, Toyotaka; Yanagawa, Y.; Nara, T.; Nakagawa, H.; Hashimoto, J.; Sakaguchi, K.

DNA repair in higher plants; photoreactivation is the major DNA repair pathway in non-proliferating cells while excision repair (nucleotide excision repair and base excision repair) is active in proliferating cells

Nucleic acids research, v. 32, (9), 2004, p. 2760-2767
Kimura, S.; Tahira, Y.; Ishibashi, Tototaka; Mori, Y.; Mori, T.; Hashimoto, J.; Sakaguchi, K.

Plant DNA polymerase λ, a DNA repair enzyme that functions in plant meristematic and meiotic tissues

European journal of biochemistry, v. 271, (13), 2004, p. 2799-2807
Uchiyama, Y.; Kimura, S.; Yamamoto, T.; Ishibashi, Toyotaka; Sakaguchi, K.

Article 5

Characterization of all the subunits of replication factor C from a higher plant, rice (Oryza sativa L.), and their relation to development

Plant molecular biology, v. 53, (1-2), 2003, p. 15-25
Furukawa, T.; Ishibashi, Toyotaka; Kimura, S.; Tanaka, H.; Hashimoto, J.; Sakaguchi, K.

Interaction between proliferating cell nuclear antigen and JUN-activation-domain-binding protein 1 in the meristem of rice, Oryza sativa L.

Planta, v. 217, (2), 2003, p. 175-183
Yamamoto, T.; Kimura, S.; Mori, Y.; Uchiyama, Y.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.

OsSEND-1: A new RAD2 nuclease family member in higher plants

Plant molecular biology, v. 51, (1), 2003, p. 59-70
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Mori, Y.; Hashimoto, J.; Sakaguchi, K.

Plant-specific regulation of replication protein A2 (OsRPA2) from rice during the cell cycle and in response to ultraviolet light exposure

Planta, v. 217, (3), 2003, p. 457-465
Marwedel, T.; Ishibashi, Toyotaka; Lorbiecke, R.; Jacob, S.; Sakaguchi, K.; Sauter, M.

Rice UV-damaged DNA binding protein homologues are most abundant in proliferating tissues

Gene, v. 308, (1-2), 2003, p. 79-87
Ishibashi, Toyotaka; Kimura, S.; Yamamoto, T.; Furukawa, T.; Takata, K.I.; Uchiyama, Y.; Hashimoto, J.; Sakaguchi, K.

Article 2

A novel DNA polymerase homologous to Escherichia coli DNA polymerase I from a higher plant, rice (Oryza sativa L.)

Nucleic acids research, v. 30, (7), 2002, p. 1585-1592
Kimura, S.; Uchiyama, Y.; Kasai, N.; Namekawa, S.; Saotome, A.; Ueda, T.; Ando, T.; Ishibashi, Toyotaka; Oshige, M.; Furukawa, T.; Yamamoto, T.; Hashimoto, J.; Sakaguchi, K.

Characterization of DNA polymerase δ from a higher plant, rice (Oryza sativa L.)

Gene, v. 295, (1), 2002, p. 19-26
Uchiyama, Y.; Hatanaka, M.; Kimura, S.; Ishibashi, Toyotaka; Ueda, T.; Sakakibara, Y.; Matsumoto, T.; Furukawa, T.; Hashimoto, J.; Sakaguchi, K.

Article 2

A plant homologue of 36 kDa subunit of replication factor C: Molecular cloning and characterization

Plant science, v. 161, (1), 2001, p. 99-106
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.

Two types of replication protein A 70 kDa subunit in rice, Oryza sativa: Molecular cloning, characterization, and cellular & tissue distribution

Gene, v. 272, (1-2), 2001, p. 335-343
Ishibashi, Toyotaka; Kimura, S.; Furukawa, T.; Hatanaka, M.; Hashimoto, J.; Sakaguchi, K.

Article 1

Molecular cloning and characterization of a plant homologue of the origin recognition complex 1 (ORC1)

Plant science, v. 158, (1-2), 2000, p. 33-39
Kimura, S.; Ishibashi, Toyotaka; Hatanaka, M.; Sakakibara, Y.; Hashimoto, J.; Sakaguchi, K.

2018 2

Site-Specific Installation of Succinyl Lysine Analog into Histones Reveals the Effect of H2BK34 Succinylation on Nucleosome Dynamics

Cell Chemical Biology, v.25, (2), Febrary 2018, p. 166-174.e7
Jing, Yihang; Liu, Zheng; Tian, Gaofei; Bao, Xiucong; Ishibashi, Toyotaka; Li, Xiang David
Article

TEFM Enhances Transcription Elongation by Modifying mtRNAP Pausing Dynamics

Biophysical Journal, v. 115, (12), December 2018, p. 2295-2300
Yu, Hongwu; Xue, Cheng; Long, Mengping; Jia, Huiqiang; Xue, Guosheng; Du, Shengwang; Coello, Yves; Ishibashi, Toyotaka
Article

2017 6

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

Development, v. 144, (12), June 2017, p. 2153-2164
An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Article

Apical constriction is driven by a pulsatile apical myosin network in delaminating Drosophila neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Conference paper

Apical Constriction is Driven by a Pulsatile Apical Myosin Network in Delaminating Drosophila Neuroblasts

An, Yanru; Xue, Guosheng; Yang, Shaobo; Deng, Mingxi; Zhou, Xiaowei; Yu, Weichuan; Ishibashi, Toyotaka; Zhang, Lei; Yan, Yan
Conference paper

Characterization of Nucleolar-localized H4 Histone Variant, H4G

Molecular Biology of the Cell, v. 28, 2017
Long, Mengping; Sun, Xulun; Shi, Wenjin; Ishibashi, Toyotaka
Conference paper

Effects of TEFM on the Regulation of Transcription Elongation by Human Mitochondrial RNA Polhymerase

Xue, Cheng; Yu, Hongwu; Long, Mengping; Ishibashi, Toyotaka
Conference paper

Molecular and cellular basis of Drosophila neuroblast delamination

Mechanisms of Development, v. 145, (Suppl.), July 2017, article number PS5.48, p. S158
An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Yan, Yan
Conference paper

2016 4

Poly(ADP-ribosyl)ation-dependent Transient Chromatin Decondensation and Histone Displacement following Laser Microirradiation

Journal of biological chemistry, v. 291, (4), January 2016, p. 1789-1802
Strickfaden, Hilmar; McDonald, Darin; Kruhlak, Michael J.; Haince, Jean-Francois; Th'ng, John P. H.; Rouleau, Michele; Ishibashi, Toytaka; Corry, Gareth N.; Ausio, Juan; Underhill, D. Alan; Pokier, Guy G.; Hendzel, Michael J.
Article

Histone Variants and Posttranslational Modifications in Spermatogenesis and Infertility

Epigenetic Biomarkers and Diagnostics / Edited by José Luis García-Giménez. USA : Academic Press, 2016, p. 479-496, Ch. 24
Ausio, Juan; Zhang, Yinan; Ishibashi, Toyotaka
Book chapter

Quantitative analysis of myosin-driven apical constriction in delaminating neuroblasts

An, Yanru; Xue, Guosheng; Ishibashi, Toyotaka; Chris, Doe; Yan, Yan
Conference paper

2014 3

Molecular Mechanisms of Transcription through Single-Molecule Experiments

Chemical Reviews, v. 114, (6), March 2014, p. 3203-3223
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Bintu, Lacramioara; Bustamante, Carlos
Article

Transcription factors IIS and IIF enhance transcription efficiency by differentially modifying RNA polymerase pausing dynamics

Biophysics and Computational Biology, v. 111, (9), March 2014, p. 3419-3424
Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Coello, Yves; Lionberger, Troy A.; Lubkowska, Lucyna; Ponticelli, Alfred S.; Kashlev, Mikhail; Bustamante, Carlos
Article

Complete Dissection of Transcription Elongation Reveals Slow Translocation of RNA Polymerase II in a Linear Ratchet Mechanism

Biophysical Journal, v. 106, (2), January 2014, p. 485a-486a, Supplement 1
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kahlev, Mikhail; Bustamante, Carlos J.
Conference paper

2013 3

Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism

eLife, v. 2013, (2), September 2013, article number e00971
Dangkulwanich, Manchuta; Ishibashi, Toyotaka; Liu, Shixin; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos J.
Article

A Quantitative Kinetic Model of Eukaryotic Transcription Elongation from Single-Molecule Experiments

Biophysical Journal, v. 104, (2), January 2013, p. 364A-364A
Dangkulwanich, Manchuta; Liu, Shixin; Ishibashi, Toyotaka; Kireeva, Maria L.; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Conference paper

Dissecting the Nucleosomal Barrier to Transcription

Biophysical Journal, v. 102, (3), January 2013, p. 284A-284A
Ishibashi, Toyotaka; Bintu, Lacramioara; Dangkulwanich, Manchuta; Wu, Gloria; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Conference paper

2012 2

Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases

Proceedings of the National Academy of Sciences of the United States of America, v. 109, (23), 2012, p. 8948-8953
Zamft, B.; Bintu, L.; Ishibashi, Toyotaka; Bustamante, C.
Article

Nucleosomal Elements that Control the Topography of the Barrier to Transcription

Cell, v. 151, (4), November 2012, p. 738-749
Bintu, Lacramioara; Ishibashi, Toyotaka; Dangkulwanich, Manchuta; Wu, Yueh-Yi; Lubkowska, Lucyna; Kashlev, Mikhail; Bustamante, Carlos
Article

2010 3

H2A.Bbd: an X-chromosome-encoded histone involved in mammalian spermiogenesis

Nucleic acids research, v. 38, (6), April 2010, p. 1780-1789
Ishibashi, Toyotaka; Li, Andra; Eirin-Lopez, Jose M.; Zhao, Ming; Missiaen, Kristal; Abbott, D. Wade; Meistrich, Marvin; Hendzel, Michael J.; Ausio, Juan
Article

Phosphorylation of Histone H2A.X by DNA-dependent Protein Kinase Is Not Affected by Core Histone Acetylation, but It Alters Nucleosome Stability and Histone H1 Binding

Journal of biological chemistry, v. 285, (23), June 2010, p. 17778-17788
Li, Andra; Yu, Yaping; Lee, Sheng-Chun; Ishibashi, Toyotaka; Lees-Miller, Susan P.; Ausio, Juan
Article

Histone variants. signaling or structural modules

Handbook of Cell Signaling, 2/e / Edited by Ralph A. Bradshaw and Edward A. Dennis. Elsevier Inc., v.3, 2010, p. 2409-2425, Chapter 289
Ishibashi, Tototaka; Li, A.; Ausió, J.
Book chapter

2009 6

Acetylation of vertebrate H2A.Z and its effect on the structure of the nucleosome

Biochemistry, v. 48, (22), 2009, p. 5007-5017
Ishibashi, T.; Dryhurst, D.; Rose, K.L.; Shabanowitz, J.; Hunt, D.F.; Ausió, J.
Article

Characterization of the histone H2A.Z-1 and H2A.Z-2 isoforms in vertebrates

BMC biology, v. 14, (7), December 2009, p. 86
Dryhurst, Deanna; Ishibashi, Toyotaka; Rose, Kristie L.; Eirin-Lopez, Jose M.; McDonald, Darin; Silva-Moreno, Begonia; Veldhoen, Nik; Helbing, Caren C.; Hendzel, Michael J.; Shabanowitz, Jeffrey; Hunt, Donald F.; Ausio, Juan
Article

H2A.Z and H3.3 histone variants affect nucleosome structure: Biochemical and biophysical studies

Biochemistry, v. 48, (46), 2009, p. 10852-10857
Thakar, A.; Gupta, P.; Ishibashi, T.; Finn, R.; Silva-Moreno, B.; Uchiyama, S.; Fukui, K.; Tomschik, M.; Ausio, J.; Zlatanova, J.
Article

New developments in post-translational modifications and functions of histone H2A variants

Biochemistry and cell biology, v. 87, (1), 2009, p. 7-17
Thambirajah, A.A.; Li, A.; Ishibashi, T.; Ausió, J.
Article

The evolutionary differentiation of two histone H2A.Z variants in chordates (H2A.Z-1 and H2A.Z-2) is mediated by a stepwise mutation process that affects three amino acid residues

BMC evolutionary biology, v. 9, (1), 2009, article number 31
EirínLópez, J.M.; González-Romero, R.; Dryhurst, D.; Ishibashi, T.; Ausió, J.
Article

The multi-replication protein A (RPA) system - A new perspective

The FEBS journal, v. 276, (4), 2009, p. 943-963
Sakaguchi, K.; Ishibashi, T.; Uchiyama, Y.; Iwabata, K.
Article

2008 3

H2A.Bbd: A quickly evolving hypervariable mammalian histone that destabilizes nucleosomes in an acetylation-independent way

The FASEB journal, v. 22, (1), 2008, p. 316-326
EirínLópez, J.M.; Ishibashi, Toyotaka; Ausió, J.
Article

MBD4-mediated glycosylase activity on a chromatin template is enhanced by acetylation

Molecular and cellular biology, v. 28, (15), 2008, p. 4734-4744
Ishibashi, T.; So, K.; Cupples, C.G.; Ausió, J.
Article

MeCP2 preferentially binds to methylated linker DNA in the absence of the terminal tail of histone H3 and independently of histone acetylation

FEBS letters, v. 582, (7), 2008, p. 1157-1162
Ishibashi, Toyotaka; Thambirajah, A.A.; Ausió, J.
Article

2007 1

Probasin promoter assembles into a strongly positioned nucleosome that permits androgen receptor binding

Molecular and Cellular Endocrinology, v. 268, March 2007, p. 10-19
Maffey, Allison H.; Ishibashi, Toyotaka; He, Cheng; Wang, Xiaoying; White, Adrienne R.; Hendy, Stephen C.; Nelson, Colleen C.; Rennie, Paul S.; Ausio, Juan
Article

2006 6

A higher plant has three different types of RPA heterotrimeric complex

The Journal of biochemistry, v. 139, (1), 2006, p. 99-104
Ishibashi, Toyotaka; Kimura, S.; Sakaguchi, K.
Article

A novel protein refolding method using a zeolite

Analytical biochemistry, v. 348, (2), 2006, p. 307-314
Chiku, H.; Kawai, A.; Ishibashi, Toyotaka; Takehara, M.; Yanai, T.; Mizukami, F.; Sakaguchi, K.
Article

Characterization of T-DNA insertion mutants and RNAi silenced plants of Arabidopsis thaliana UV-damaged DNA binding protein 2 (AtUV-DDB2)

Plant molecular biology, v. 61, (1-2), 2006, p. 227-240
Koga, A.; Ishibashi, Toyotaka; Kimura, S.; Uchiyama, Y.; Sakaguchi, K.
Article

DNA repair mechanisms in UV-B tolerant plants

JARQ, v. 40, (2), April 2006, p. 107-113
Ishibashi, Toyotaka; Kimura, Seisuke; Furukawa, Tornoyuki; Sakaguchi, Kengo
Article

H2A.Z stabilizes chromatin in a way that is dependent on core histone acetylation

Journal of biological chemistry, v. 281, (29), July 2006, p. 20036-20044
Thambirajah, Anita A.; Dryhurst, Deanna; Ishibashi, Toyotaka; Li, Andra; Maffey, Allison H.; Ausio, Juan
Article

Higher plant RecA-like protein is homologous to RadA

DNA repair, v. 5, (1), 2006, p. 80-88
Ishibashi, Toyotaka; Isogai, Minako; Kiyohara, Hiroyuki; Hosaka, Masahiro; Chiku, Hiroyuki; Koga, Asami; Yamamoto, Taichi; Uchiyama, Yukinobu; Mori, Yoko; Hashimoto, Junji; Ausió, Juan Thomas; Kimura, Seisuke; Sakaguchi, Kengo
Article

2005 5

Characterization of the origin recognition complex (ORC) from a higher plant, rice (Oryza sativa L.)

Gene, v. 353, (1), 2005, p. 23-30
Mori, Y.; Yamamoto, T.; Sakaguchi, N.; Ishibashi, Toyotaka; Furukawa, T.; Kadota, Y.; Kuchitsu, K.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

DNA repair in higher plants

生化学, v. 77, (2), 2005, p. 113-123
Kimura, S.; Ishibashi, T.; Yamamoto, T.; Sakaguchi, K.
Article

Interaction between proliferating cell nuclear antigen (PCNA) and a DnaJ induced by DNA damage

Journal of Plant Research, v. 118, (2), 2005, p. 91-97
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Ueda, T.; Ando, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

Plastid DNA polymerases from higher plants, Arabidopsis thaliana

Biochemical and biophysical research communications, v. 334, (1), 2005, p. 43-50
Mori, Y.; Kimura, S.; Saotome, A.; Kasai, N.; Sakaguchi, N.; Uchiyama, Y.; Ishibashi, Toyotaka; Yamamoto, T.; Chiku, H.; Sakaguchi, K.
Article

Two types of replication protein A in seed plants: Characterization of their functions in vitro and in vivo

The FEBS journal, v. 272, (13), 2005, p. 3270-3281
Ishibashi, Toyotaka; Koga, A.; Yamamoto, T.; Uchiyama, Y.; Mori, Y.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

2004 5

Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo and enhances the activity of ubiquitin conjugating enzymes

Genes & development, v. 18, (17), 2004, p. 2172-2181
Yanagawa, Y.; Sullivan, J.A.; Komatsu, S.; Gusmaroli, G.; Suzuki, G.; Yin, J.; Ishibashi, Toyotaka; Saijo, Y.; Rubio, V.; Kimura, S.; Wang, J.; Deng, X.W.
Article

Characterization of Rad6 from a higher plant, rice (Oryza sativa L.) and its interaction with Sgt1, a subunit of the SCF ubiquitin ligase complex

Biochemical and biophysical research communications, v. 314, (2), 2004, p. 434-439
Yamamoto, T.; Mori, Y.; Ishibashi, Toyotaka; Uchiyama, Y.; Sakaguchi, N.; Furukawa, T.; Hashimoto, J.; Kimura, S.; Sakaguchi, K.
Article

Degradation of proliferating cell nuclear antigen by 26S proteasome in rice (Oryza sativa L.)

Planta, v. 218, (4), 2004, p. 640-646
Yamamoto, T.; Kimura, S.; Mori, Y.; Oka, M.; Ishibashi, Toyotaka; Yanagawa, Y.; Nara, T.; Nakagawa, H.; Hashimoto, J.; Sakaguchi, K.
Article

DNA repair in higher plants; photoreactivation is the major DNA repair pathway in non-proliferating cells while excision repair (nucleotide excision repair and base excision repair) is active in proliferating cells

Nucleic acids research, v. 32, (9), 2004, p. 2760-2767
Kimura, S.; Tahira, Y.; Ishibashi, Tototaka; Mori, Y.; Mori, T.; Hashimoto, J.; Sakaguchi, K.
Article

Plant DNA polymerase λ, a DNA repair enzyme that functions in plant meristematic and meiotic tissues

European journal of biochemistry, v. 271, (13), 2004, p. 2799-2807
Uchiyama, Y.; Kimura, S.; Yamamoto, T.; Ishibashi, Toyotaka; Sakaguchi, K.
Article

2003 5

Characterization of all the subunits of replication factor C from a higher plant, rice (Oryza sativa L.), and their relation to development

Plant molecular biology, v. 53, (1-2), 2003, p. 15-25
Furukawa, T.; Ishibashi, Toyotaka; Kimura, S.; Tanaka, H.; Hashimoto, J.; Sakaguchi, K.
Article

Interaction between proliferating cell nuclear antigen and JUN-activation-domain-binding protein 1 in the meristem of rice, Oryza sativa L.

Planta, v. 217, (2), 2003, p. 175-183
Yamamoto, T.; Kimura, S.; Mori, Y.; Uchiyama, Y.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.
Article

OsSEND-1: A new RAD2 nuclease family member in higher plants

Plant molecular biology, v. 51, (1), 2003, p. 59-70
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Mori, Y.; Hashimoto, J.; Sakaguchi, K.
Article

Plant-specific regulation of replication protein A2 (OsRPA2) from rice during the cell cycle and in response to ultraviolet light exposure

Planta, v. 217, (3), 2003, p. 457-465
Marwedel, T.; Ishibashi, Toyotaka; Lorbiecke, R.; Jacob, S.; Sakaguchi, K.; Sauter, M.
Article

Rice UV-damaged DNA binding protein homologues are most abundant in proliferating tissues

Gene, v. 308, (1-2), 2003, p. 79-87
Ishibashi, Toyotaka; Kimura, S.; Yamamoto, T.; Furukawa, T.; Takata, K.I.; Uchiyama, Y.; Hashimoto, J.; Sakaguchi, K.
Article

2002 2

A novel DNA polymerase homologous to Escherichia coli DNA polymerase I from a higher plant, rice (Oryza sativa L.)

Nucleic acids research, v. 30, (7), 2002, p. 1585-1592
Kimura, S.; Uchiyama, Y.; Kasai, N.; Namekawa, S.; Saotome, A.; Ueda, T.; Ando, T.; Ishibashi, Toyotaka; Oshige, M.; Furukawa, T.; Yamamoto, T.; Hashimoto, J.; Sakaguchi, K.
Article

Characterization of DNA polymerase δ from a higher plant, rice (Oryza sativa L.)

Gene, v. 295, (1), 2002, p. 19-26
Uchiyama, Y.; Hatanaka, M.; Kimura, S.; Ishibashi, Toyotaka; Ueda, T.; Sakakibara, Y.; Matsumoto, T.; Furukawa, T.; Hashimoto, J.; Sakaguchi, K.
Article

2001 2

A plant homologue of 36 kDa subunit of replication factor C: Molecular cloning and characterization

Plant science, v. 161, (1), 2001, p. 99-106
Furukawa, T.; Kimura, S.; Ishibashi, Toyotaka; Hashimoto, J.; Sakaguchi, K.
Article

Two types of replication protein A 70 kDa subunit in rice, Oryza sativa: Molecular cloning, characterization, and cellular & tissue distribution

Gene, v. 272, (1-2), 2001, p. 335-343
Ishibashi, Toyotaka; Kimura, S.; Furukawa, T.; Hatanaka, M.; Hashimoto, J.; Sakaguchi, K.
Article

2000 1

Molecular cloning and characterization of a plant homologue of the origin recognition complex 1 (ORC1)

Plant science, v. 158, (1-2), 2000, p. 33-39
Kimura, S.; Ishibashi, Toyotaka; Hatanaka, M.; Sakakibara, Y.; Hashimoto, J.; Sakaguchi, K.
Article

Teaching Assignment

2024-25 Fall 2 2023-24 Summer 0 2023-24 Spring 6 2023-24 Winter 0 2023-24 Fall 5 2022-23 Summer 1

LIFS6111U	Life Science Postgraduate Student Seminar
LIFS6113H	Current Topics in Biochemistry and Biophysics

BIBU4850	Biotechnology and Business Project Research
LIFS4800	Epigenetics and Chromosome Biology
LIFS4960	Biological Science Capstone Project
LIFS6800	Frontiers in Nucleic Acid Research
UROP2100L	Undergraduate Research Opportunities Series 2
UROP3100L	Undergraduate Research Opportunities Series 3

BIBU4850	Biotechnology and Business Project Research
LIFS4960	Biological Science Capstone Project
LIFS4961	Biochemistry and Cell Biology Capstone Project
LIFS6113G	Current Topics in Biochemistry and Biophysics
UROP1100K	Undergraduate Research Opportunities Series 1

UROP1000

Undergraduate Research Opportunities

No Teaching Assignments

Research Postgraduate (RPG) Supervision

From January 2021 to December 2024 (As of 21 November 2024)

All Supervisions Current RPGs Graduated RPGs

Current RPGs

Doctor of Philosophy

JIN, Tingyu
Life Science
BAI, Xinpeng
Life Science
LEI, Yingshou
Life Science
TSUI, Long Wai
Life Science

Master of Philosophy

NGUYEN, Dac Hieu
Life Science

Graduated RPGs

Doctor of Philosophy

MA, Xiaohui
Life Science( Completed in 2024 )
PANG, Yu Hin
Life Science( Completed in 2024 )
NGUYEN, Thi Thuy
Life Science( Completed in 2023 )

Master of Philosophy

LIU, Yue
Life Science( Completed in 2024 )
LEE, Min-hsun
Life Science( Completed in 2021 )

Projects

From January 2022 to December 2024

All Projects 4 Leading Projects 1 Participating Projects 3

Functional roles of human testes-specific histone H2B variants during spermatogenesis

人類睪丸組織特異性組蛋白H2B變體在精子發育過程中的功能性研究 Leading

National Natural Science Foundation of China
Project Team (HKUST)
ISHIBASHI Toyotaka (Lead)
2022 -
From Structural to Genomic Biology: A Multi-scale Approach Tightly Integrating Structural Biology and Novel Genomics Platform to Quantitatively Analyze the Transcription and its Regulation of SARS-CoV-2 Viral RNA Polymerase

從結構生物學到基因組生物學：一種緊密結合結構生物學和新型基因組學平臺定量分析2019冠狀病毒RNA聚合酶轉錄和調控的多尺度方法 Participating

RGC - Collaborative Research Fund
Project Team (HKUST)
ISHIBASHI Toyotaka
2022 -
Detection and Functional Study of Genetic Structure Variations in Familial Breast Cancer Using the Third Generation Sequencing Technology

應用第三代測序技術對家族性乳腺癌基因結構變異的檢測及功能研究 Participating

Innovation and Technology Fund
Project Team (HKUST)
YU Weichuan (Lead)

ISHIBASHI Toyotaka
2022 - 2024
Structure and molecular mechanisms of the eukaryotic replisome

真核生物複製機器的結構和分子機制研究 Participating

RGC - Collaborative Research Fund
Project Team (HKUST)
ISHIBASHI Toyotaka
2021 - 2024

Research Interest

Publications

2024 3

2023 1

2022 1

2021 3

2020 5

2019 2

2018 2

2017 6

2016 4

2014 3

2013 3

2012 2

2010 3

2009 6

2008 3

2007 1

2006 6

2005 5

2004 5

2003 5

2002 2

2001 2

2000 1

Conference paper 3

Article 1

Article 1

Article 3

Article 5

Article 2

Article 2

Article 1

Conference paper 5

Article 1

Book chapter 1

Conference paper 2

Article 2

Conference paper 1

Article 1

Conference paper 2

Article 2

Article 2

Book chapter 1

Article 6

Article 3

Article 1

Article 6

Article 5

Article 5

Article 5

Article 2

Article 2

Article 1

2018 2

2017 6

2016 4

2014 3

2013 3

2012 2

2010 3

2009 6

2008 3

2007 1

2006 6

2005 5

2004 5

2003 5

2002 2

2001 2

2000 1

Teaching Assignment

Research Postgraduate (RPG) Supervision

From January 2021 to December 2024 (As of 21 November 2024)

Current RPGs

Graduated RPGs

Projects

From January 2022 to December 2024

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