News
| 12/2025 | Published an introduction of DeepSpaceDB in 実験医学 (in Japanese). |
| 10/2025 | Our paper introducing DeepSpaceDB was published in the Nucleic Acids Research Database issue. |
| 03/2025 | Protocol for using DeepSpaceDB published in 実験医学. [pdf] |
Research Interests
1
Construction of DeepSpaceDB, a database for spatial transcriptomics data.
2
Finding biological insights in single-cell and spatial transcriptomics data. See this paper for an example.
3
Finding interesting genes in single-cell and spatial transcriptome data using singleCellHaystack — available on GitHub and CRAN. See Nature Communications (2020) and Scientific Reports (2023).
4
Analysis of large-scale gene expression data, including removal of technical biases and inference of gene regulatory networks.
5
Analysis of stimulus-induced changes in epigenetic markers and their effect on transcription; broad involvement in interdisciplinary immunology collaborations.
Teaching
Since 2017, teaching statistics, data analysis, bioinformatics, and R programming at Kyoto University.
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Career Summary
| 2022 – present |
Associate Professor
LiMe, Kyoto University
|
| 2017 – 2022 |
Lecturer
INFRONT (now LiMe), Kyoto University
|
| 2014 – 2017 |
Unit Leader, Immuno-Genomics Research Unit
IFReC, Osaka University
|
| 2012 – 2017 |
Specially Appointed Assistant Professor
IFReC, Osaka University
|
| 2009 – 2012 |
Post-doctoral Researcher
IFReC, Osaka University
|
| 2009 |
Ph.D. in Bioinformatics
University of Tokyo
|
| 2004 |
M.Sc. in Molecular Biotechnology
Ghent University, Belgium
|
| 2003 |
M.Sc. in Biochemistry
KHBO, Belgium
|