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ResearcherID: G-6011-2015

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Japan

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Employment (3)

Okinawa Institute of Science and Technology Graduate University: Onna, Okinawa, JP

2021-04-01 to present | Professor (Luscombe Unit)
Employment
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OIST via ORCID Member Portal

Okinawa Institute of Science and Technology Graduate University: Okinawa, JP

2011-06-01 to present
Employment
Source: Self-asserted source
Nicholas Luscombe

The Francis Crick Institute: London, London, GB

2012-03-01 to 2022-03-31
Employment
Source: Self-asserted source
Nicholas Luscombe

Works (38)

Transcriptomes of a fast-developing chordate uncover drastic differences in transcription factors and localized maternal RNA composition compared with those of ascidians

Development
2025-03-15 | Journal article
DOI: 10.1242/dev.202666
Contributors: Kai Wang; Ritsuko Suyama; Nanako Mizutani; Masaki Matsuo; Yu Peng; Masahide Seki; Yutaka Suzuki; Nicholas M. Luscombe; Christelle Dantec; Patrick Lemaire et al.
Source: check_circle
Crossref

The complete mitogenome of an unidentified Oikopleura species

F1000Research
2025-03-07 | Journal article
DOI: 10.12688/f1000research.157311.2
Contributors: Johannes Nicolaus Wibisana; Charles Plessy; Nicolas Dierckxsens; Aki Masunaga; Jiashun Miao; Nicholas M. Luscombe
Source: check_circle
Crossref

Less, but More: New Insights From Appendicularians on Chordate Fgf Evolution and the Divergence of Tunicate Lifestyles

Molecular Biology and Evolution
2025-01-06 | Journal article
DOI: 10.1093/molbev/msae260
Contributors: Gaspar Sánchez-Serna; Jordi Badia-Ramentol; Paula Bujosa; Alfonso Ferrández-Roldán; Nuria P Torres-Águila; Marc Fabregà-Torrus; Johannes N Wibisana; Michael J Mansfield; Charles Plessy; Nicholas M Luscombe et al.
Source: check_circle
Crossref

Cross-tissue isoform switches by human transcription factors suggest a widespread regulatory mechanism

2024-11-29 | Preprint
DOI: 10.1101/2024.11.28.625692
Contributors: Sviatoslav Sidorov; Koustav Pal; Boris Lenhard; Nicholas M. Luscombe
Source: check_circle
Crossref

The complete mitogenome of an unidentified Oikopleura species [version 1; peer review: 1 approved, 1 approved with reservations]

2024-11-12 | Journal article
DOI: 10.12688/f1000research.157311.1
Part of ISSN: 2046-1402
Funded by GRANT_NUMBER: 23K14236
Contributors: Johannes Nicolaus Wibisana; Charles Plessy; Nicolas M. Dierckxsens; Aki Masunaga; Jiashun Miao; Nicholas Luscombe; Dierckxsens Nicolas M.; Dierckxsens Nicolas M.; Dierckxsens Nicolas M.; Dierckxsens Nicolas M. et al.
Source: check_circle
F1000
grade
Preferred source (of 2)‎

Integrative profiling of condensation-prone RNAs during early development

2024-10-16 | Preprint
DOI: 10.1101/2024.10.14.618182
Contributors: Tajda Klobučar; Jona Novljan; Ira A. Iosub; Boštjan Kokot; Iztok Urbančič; D. Marc Jones; Anob M. Chakrabarti; Nicholas M. Luscombe; Jernej Ule; Miha Modic
Source: check_circle
Crossref

Tracing Homopolymers in Oikopleura dioica's Mitogenome

Genome Biology and Evolution
2024-09-03 | Journal article
DOI: 10.1093/gbe/evae182
Contributors: Nicolas Dierckxsens; Kosei Watanabe; Yongkai Tan; Aki Masunaga; Michael J Mansfield; Jiashun Miao; Nicholas M Luscombe; Charles Plessy; Davide Pisani
Source: check_circle
Crossref

Less, but more: new insights from appendicularians on chordateFgfevolution and the divergence of tunicate lifestyles

2024-08-30 | Preprint
DOI: 10.1101/2024.08.30.610304
Contributors: Gaspar Sánchez-Serna; Jordi Badia-Ramentol; Paula Bujosa; Alfonso Ferrández-Roldán; Nuria P. Torres-Águila; Marc Fabregà-Torrus; Johannes N. Wibisana; Michael J. Mansfield; Charles Plessy; Nicholas M. Luscombe et al.
Source: check_circle
Crossref

The complete mitogenome of an unidentifiedOikopleuraspecies

2024-07-06 | Preprint
DOI: 10.1101/2024.07.04.602139
Contributors: Johannes Nicolaus Wibisana; Charles Plessy; Nicolas Dierckxsens; Aki Masunaga; Jiashun Miao; Nicholas M. Luscombe
Source: check_circle
Crossref

Tracing Homopolymers inOikopleura dioica’s mitogenome

2024-05-16 | Preprint
DOI: 10.1101/2024.05.16.594446
Contributors: Nicolas Dierckxsens; Kosei Watanabe; Yongkai Tan; Aki Masunaga; Michael J. Mansfield; Jiashun Miao; Nicholas M. Luscombe; Charles Plessy
Source: check_circle
Crossref

clipplotr—a comparative visualization and analysis tool for CLIP data

RNA
2023-06 | Journal article
DOI: 10.1261/rna.079326.122
Contributors: Anob M. Chakrabarti; Charlotte Capitanchik; Jernej Ule; Nicholas M. Luscombe
Source: check_circle
Crossref

A computationally-enhanced hiCLIP atlas reveals Staufen1-RNA binding features and links 3′ UTR structure to RNA metabolism

Nucleic Acids Research
2023-05-08 | Journal article
DOI: 10.1093/nar/gkad221
Contributors: Anob M Chakrabarti; Ira A Iosub; Flora C Y Lee; Jernej Ule; Nicholas M Luscombe
Source: check_circle
Crossref

Development of the Research Data Archive at OIST

2022 | Book chapter
DOI: 10.1007/978-3-030-96600-3_2
Contributors: Matthew R. Leyden; Nicholas M. Luscombe; Milind Purohit
Source: check_circle
Crossref

A computationally-enhanced hiCLIP atlas reveals Staufen1 RNA binding features and links 3’ UTR structure to RNA metabolism

2022-06-16 | Preprint
DOI: 10.1101/2022.06.13.495933
Contributors: Anob M. Chakrabarti; Ira A. Iosub; Flora C. Y. Lee; Jernej Ule; Nicholas M. Luscombe
Source: check_circle
Crossref

A single-cell atlas of bobtail squid visual and nervous system highlights molecular principles of convergent evolution

2022-05-28 | Preprint
DOI: 10.1101/2022.05.26.490366
Contributors: Daria Gavriouchkina; Yongkai Tan; Fabienne Ziadi-Künzli; Yuko Hasegawa; Laura Piovani; Lin Zhang; Chikatoshi Sugimoto; Nicholas Luscombe; Ferdinand Marlétaz; Daniel S. Rokhsar
Source: check_circle
Crossref

Automated phenol-chloroform extraction of high molecular weight genomic DNA for use in long-read single-molecule sequencing [version 1; peer review: 2 approved]

2022-02-28 | Journal article
DOI: 10.12688/f1000research.109251.1
Part of ISSN: 2046-1402
Funded by GRANT_NUMBER: 16H06328
Contributors: Andrew W. Liu; Alejandro Villar-Briones; Nicholas M. Luscombe; Charles Plessy; Liu Andrew W.; Liu Andrew W.; Liu Andrew W.; Liu Andrew W.; Liu Andrew W.; Liu Andrew W. et al.
Source: check_circle
F1000
grade
Preferred source (of 2)‎

Annelid functional genomics reveal the origins of bilaterian life cycles

2022-02-06 | Preprint
DOI: 10.1101/2022.02.05.479245
Contributors: Yan Liang; Francisco M. Martín-Zamora; Kero Guynes; Allan M. Carrillo-Baltodano; Yongkai Tan; Giacomo Moggioli; Océane Seudre; Martin Tran; Kate Mortimer; Nicholas M. Luscombe et al.
Source: check_circle
Crossref

Automated phenol-chloroform extraction of high molecular weight genomic DNA for use in long-read single-molecule sequencing

2022-01-28 | Preprint
DOI: 10.1101/2022.01.26.477939
Contributors: Andrew W. Liu; Alejandro Villar-Briones; Nicholas M. Luscombe; Charles Plessy
Source: check_circle
Crossref

Chromatin-contact atlas reveals disorder-mediated protein interactions and moonlighting chromatin-associated RBPs

Nucleic Acids Research
2021-12-16 | Journal article
DOI: 10.1093/nar/gkab1180
Contributors: Mahmoud-Reza Rafiee; Julian A Zagalak; Sviatoslav Sidorov; Sebastian Steinhauser; Karen Davey; Jernej Ule; Nicholas M Luscombe
Source: check_circle
Crossref

clipplotr - a comparative visualisation and analysis tool for CLIP data

2021-09-11 | Other
DOI: 10.1101/2021.09.10.459763
Contributors: Anob M. Chakrabarti; Charlotte Capitanchik; Jernej Ule; Nicholas M. Luscombe
Source: check_circle
Crossref

Comparative transcriptomics reveals unique patterns of convergence in the evolution of eusociality

2021-07-12 | Preprint
DOI: 10.1101/2021.07.11.451940
Contributors: M. Velasque; Y. Tan; A.W. Liu; N.M. Luscombe; J.A. Denton
Source: check_circle
Crossref

Ultraplex: A rapid, flexible, all-in-one fastq demultiplexer [version 1; peer review: 2 approved]

2021-06-07 | Journal article
DOI: 10.12688/wellcomeopenres.16791.1
Part of ISSN: 2398-502X
Contributors: Oscar G Wilkins; Charlotte Capitanchik; Nicholas M. Luscombe; Jernej Ule
Source: check_circle
Wellcome Open Research
grade
Preferred source (of 2)‎

Clinically Relevant Vulnerabilities of Deep Machine Learning Systems for Skin Cancer Diagnosis

Journal of Investigative Dermatology
2021-04 | Journal article
DOI: 10.1016/j.jid.2020.07.034
Contributors: Xinyi Du-Harpur; Callum Arthurs; Clarisse Ganier; Rick Woolf; Zainab Laftah; Manpreet Lakhan; Amr Salam; Bo Wan; Fiona M. Watt; Nicholas M. Luscombe et al.
Source: check_circle
Crossref

ChromWave: Deciphering the DNA-encoded competition between transcription factors and nucleosomes with deep neural networks

2021-03-20 | Preprint
DOI: 10.1101/2021.03.19.436198
Contributors: Sera Aylin Cakiroglu; Sebastian Steinhauser; Jon Smith; Wei Xing; Nicholas M. Luscombe
Source: check_circle
Crossref

psiCLIP reveals dynamic RNA binding by DEAH-box helicases before and after exon ligation

Nature Communications
2021-03-05 | Journal article
DOI: 10.1038/s41467-021-21745-9
Contributors: Lisa M. Strittmatter; Charlotte Capitanchik; Andrew J. Newman; Martina Hallegger; Christine M. Norman; Sebastian M. Fica; Chris Oubridge; Nicholas M. Luscombe; Jernej Ule; Kiyoshi Nagai
Source: check_circle
Crossref

H3S28P Antibody Staining of Okinawan Oikopleura dioica Suggests the Presence of Three Chromosomes [version 2; peer review: 2 approved]

2021-03-01 | Journal article
DOI: 10.12688/f1000research.25019.2
Part of ISSN: 2046-1402
Contributors: Andrew W. Liu; Yongkai Tan; Aki Masunaga; Aleksandra Bliznina; Charlotte West; Charles Plessy; Nicholas M. Luscombe
Source: check_circle
F1000
grade
Preferred source (of 2)‎

What is AI? Applications of artificial intelligence to dermatology

British Journal of Dermatology
2020-09 | Journal article
DOI: 10.1111/bjd.18880
Contributors: X. Du‐Harpur; F.M. Watt; N.M. Luscombe; M.D. Lynch
Source: check_circle
Crossref

Chromatin-contact atlas reveals disorder-mediated protein interactions and moonlighting chromatin-associated RBPs

2020-07-13 | Preprint
DOI: 10.1101/2020.07.13.200212
Contributors: Mahmoud-Reza Rafiee; Julian A Zagalak; Sviatoslav Sidorov; Sebastian Steinhauser; Karen Davey; Jernej Ule; Nicholas M Luscombe
Source: check_circle
Crossref

CD147 (BSG) but notACE2expression is detectable in vascular endothelial cells within single cell RNA sequencing datasets derived from multiple tissues in healthy individuals

2020-05-29 | Preprint
DOI: 10.1101/2020.05.29.123513
Contributors: C Ganier; X Du-Harpur; N Harun; B Wan; C Arthurs; NM Luscombe; FM Watt; MD Lynch
Source: check_circle
Crossref

Finding cell-specific expression patterns in the early Ciona embryo with single-cell RNA-seq

Scientific Reports
2020-03-18 | Journal article
DOI: 10.1038/s41598-020-61591-1
Contributors: Garth R. Ilsley; Ritsuko Suyama; Takeshi Noda; Nori Satoh; Nicholas M. Luscombe
Source: check_circle
Crossref

PsiCLIP reveals dynamic RNA binding by DEAH-box helicases before and after exon ligation

2020-03-15 | Preprint
DOI: 10.1101/2020.03.15.992701
Contributors: Lisa M. Strittmatter; Charlotte Capitanchik; Andrew J. Newman; Martina Hallegger; Christine M. Norman; Sebastian M. Fica; Chris Oubridge; Nicholas M. Luscombe; Jernej Ule; Kiyoshi Nagai
Source: check_circle
Crossref

Nucleosome positioning stability is a modulator of germline mutation rate variation across the human genome

Nature Communications
2020-03-13 | Journal article
DOI: 10.1038/s41467-020-15185-0
Contributors: Cai Li; Nicholas M. Luscombe
Source: check_circle
Crossref

Intergenic RNA mainly derives from nascent transcripts of known genes

2020-01-09 | Preprint
DOI: 10.1101/2020.01.08.898478
Contributors: Agostini Federico; Zagalak Julian; Attig Jan; Ule Jernej; Nicholas M. Luscombe
Source: check_circle
Crossref

Widespread use of the “ascidian” mitochondrial genetic code in tunicates

2019-12-05 | Other
DOI: 10.1101/865725
Contributors: Julien Pichon; Nicholas M. Luscombe; Charles Plessy
Source: check_circle
Crossref

RNA modifications detection by comparative Nanopore direct RNA sequencing

2019-11-15 | Other
DOI: 10.1101/843136
Contributors: Adrien Leger; Paulo P. Amaral; Luca Pandolfini; Charlotte Capitanchik; Federica Capraro; Isaia Barbieri; Valentina Migliori; Nicholas M. Luscombe; Anton J Enright; Konstantinos Tzelepis et al.
Source: check_circle
Crossref

Machine learning models in electronic health records can outperform conventional survival models for predicting patient mortality in coronary artery disease

2018-01-30 | Other
DOI: 10.1101/256008
Contributors: Andrew J. Steele; S. Aylin Cakiroglu; Anoop D. Shah; Spiros C. Denaxas; Harry Hemingway; Nicholas M. Luscombe
Source: check_circle
Crossref

Integrated analysis sheds light on evolutionary trajectories of young transcription start sites in the human genome

2017-09-22 | Preprint
DOI: 10.1101/192757
Contributors: Cai Li; Boris Lenhard; Nicholas M. Luscombe
Source: check_circle
Crossref

Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis

2017-07-25 | Preprint
DOI: 10.1101/168153
Contributors: Anna R Poetsch; Simon J Boulton; Nicholas M Luscombe
Source: check_circle
Crossref

Peer review (1 review for 1 publication/grant)

Review activity for Trends in genetics. (1)
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