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Transcriptomics Lab
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A lab that investigates, from the perspective of chromatin structure, how the genes that define a cell's identity are selected.
AboutAbout the lab
Understanding cell differentiation potential through chromatin structure.
The Ohkawa Lab studies how the genes that define a cell's identity are selected from the genome, focusing on chromatin structure.
While examining the differentiation potential of stem cells in terms of chromatin structure, the lab aims to understand it by computationally analyzing epigenome data.
The lab works systematically, from developing single-cell analysis technologies using high-throughput sequencers to developing technologies for analyzing large-scale data.
On the lab's website, it is presented under the name "Ohkawa Lab, Division of Transcriptomics."
Key terms
- Chromatin structure
- A structure formed by a chain of complexes of DNA and histones (nucleosomes).
- Epigenome
- The genome-wide view of states on chromatin, such as histone modifications.
- Histone variant
- A different type of the histone molecules that make up nucleosomes.
NewsLab news
Paper on ddHodge, a method for reconstructing the vector field of cell state changes, published in Nature Communications
Paper on integrated single-cell epigenome analysis published in Nature Communications
Paper on a multiplexed imaging method that cancels immunofluorescence published in Nature Communications
ResearchResearch themes
A cell's identity is determined by which genes are selected from the genome that many cells share. This lab focuses on chromatin structure, the place where genes are selected, and investigates the mechanisms of that selection.
*Illustrative imageChromatin structure that determines differentiation potential
The lab considers that whether a stem cell can differentiate depends on whether its chromatin is structured so that the genes required for differentiation can be expressed, and it studies the structures specific to stem cells. It analyzes the roles of histone variants and of factors that rearrange chromatin structure.
*Illustrative imageReconstructing differentiation potential computationally
The lab aims to extract the differentiation potential of stem cells from the vast amounts of data produced by epigenome analysis, and to reconstruct and understand it computationally. It is first carrying out computational analysis focused on nucleosome positioning, the most basic form.
*Illustrative imageDeveloping new epigenome analysis technologies
To study stem cells, which exist in only very small numbers in the body, the lab is developing technologies that can analyze the epigenome from a small number of cells. It has succeeded in developing ChIL-Seq, an epigenome analysis technology at the single-cell level, and also produces the necessary antibodies itself.
MembersFaculty
Members of the Ohkawa Lab include faculty, project faculty, academic researchers, graduate students, a lab manager, advanced research technicians, technical staff, and a lab secretary.As of 2026
- ProfessorYasuyuki Ohkawa
- Assistant ProfessorHiroaki Takesue
- Assistant ProfessorTakeru Fujii
- Specific Project FacultyYoshifumi Saito
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Report an errorAbout the images
The top and research theme images are illustrative and were not taken at the lab. They are cropped from Wikimedia Commons images. Cropped CC BY-SA images are provided under the same CC BY-SA license as the original (version shown on each line).
- Top image: “Chromatin Structures” Original uploader was Richard Wheeler at en.wikipedia / CC BY-SA 3.0 (cropped)
- Chromatin structure that determines differentiation potential: “Stem cells diagram rus” The original uploader was Snch at Russian Wikipedia. / CC BY-SA 2.5 (cropped)
- Reconstructing differentiation potential computationally: “FEM Simulation Akustik” Ibsmc / CC BY 4.0 (cropped)
- Developing new epigenome analysis technologies: “Next generation sequencing slide” Bainscou / CC BY 3.0 (cropped)
- Related lab (Disease Genome Biology Lab): “Histological section of small intestine epithelial tissue, zoom” Otávio Astor Vaz Costa / CC BY 4.0 (cropped)
- Related lab (Gene Expression Dynamics Lab): “TranscriptionGraphic PublicDomain” Zulujive / CC0 (cropped)
- Related lab (Biomedical Information Analysis Lab): “Geographical distribution of human major genetic ancestral components” Wikiuser1314 / CC BY-SA 4.0 (cropped)
- Related lab (Cell Heterogeneity Lab): “Skeletal Muscle Tissue” Community College Bioscience / CC0 (cropped)
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