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Deep Omics Analysis Lab
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The lab develops technologies to capture which cells in a tissue express what.
AboutAbout the lab
Capturing cell position and expression at the same time.
The Joint Research Division of Deep Omics Analysis at the Medical Institute of Bioregulation develops spatial omics technologies that simultaneously capture where each cell is located in a tissue and what it expresses.
The lab works on a method that combines a technique for writing positional information into cells as molecular barcodes with single-cell gene expression analysis, reconstructing tissue as a spatial map of single cells.
The lab is also developing a technology that simultaneously visualizes chemical modifications of RNAs and proteins inside cells, and uses AI image analysis to investigate where in the cell RNAs that disrupt normal cell function act.
Key terms
- Spatial omics
- Analysis that comprehensively examines which cells are located where in a tissue and what they express, together with their positional information.
- Tumor microenvironment
- The environment within cancer tissue. It influences cancer progression and treatment resistance.
- Disruptive RNA
- RNA that disrupts the normal functions of cells. It has been suggested to be linked to cancer and other diseases, but much remains unclear about its localization and mechanisms of action within cells.
ResearchResearch themes
The tumor microenvironment influences cancer progression and treatment resistance, but it is considered difficult to simultaneously capture which cells are located where and what they express. The lab develops spatial analysis technologies that link cell position and molecular information at the single-cell level.
Turning Cancer Tissue into a Spatial Map of Single Cells
To investigate the heterogeneity of the tumor microenvironment, the lab is developing a method that combines a technique for writing positional information into cells as molecular barcodes with single-cell gene expression analysis, reconstructing whole tissue as a spatial map of single cells. The plan is to first establish the underlying technology in cultured cells and then apply it to tissue from organs prone to cancer.
*Illustrative imageExploring the Spatial Action of Disruptive RNAs
To investigate where and how disruptive RNAs act inside cells, the lab is developing a technology that simultaneously visualizes chemical modifications of many RNAs and proteins in cells. Using AI image analysis, it aims to elucidate their spatial action at the single-cell level.
MembersFaculty
- Assistant ProfessorYuma Ito
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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: “Tumor microenvironment” Frontiers in Oncology / CC BY 3.0 (cropped)
- Exploring the Spatial Action of Disruptive RNAs: “Green Fluorescence Microscopy” Jamil Baza / CC BY 4.0 (cropped)
- Related lab (Network AI Statistical Analysis Lab): “Airports Network Map” Martin Grandjean / CC BY-SA 4.0 (cropped)
- Related lab (Gene Expression Dynamics Lab): “TranscriptionGraphic PublicDomain” Zulujive / CC0 (cropped)
- Related lab (Nakatani Higher-Order Life Dynamics Lab): “Epigenetische Mechanismen” File:Epigenetic mechanisms.png: National Institutes of Health derivative work: Henry Sonnet / CC0 (cropped)
- Related lab (Chromatin Structure and Function Lab): “Snf2 ATPase domain in complex with a nucleosome” EMBL-EBI / Public domain (cropped)
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