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Bio-Information Measurement Lab
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A lab that measures metabolism and explores its operating principles from data.
AboutAbout the lab
Unraveling how metabolism works through biology, informatics, and measurement
The Bio-Information Measurement Lab aims to clarify why biological metabolism works so well and to apply that understanding to biotechnology and information technology.
Metabolism is the process by which cells break down sugars and other nutrients to extract the energy they need to live, and produce the materials for building new cells.
The lab develops technologies for measuring metabolism and for analyzing measurement data, and uses them in research on topics such as cancer metabolism and the metabolism of budding yeast.
Key terms
- Metabolism
- The series of processes by which cells break down sugars and other nutrients to extract energy and produce materials for new cells.
- Budding yeast
- A yeast used in brewing and bread making. There are strains for different purposes, such as laboratory yeast, baker's yeast, wine yeast, and sake yeast.
- Metabolic flux
- The flow of compounds through metabolic pathways. It is difficult to measure changes in this flow directly.
- Ensemble modeling
- A method that builds multiple mathematical metabolic models with similar predictive power and treats predictions that the models share as likely to be correct.
ResearchResearch themes
Central metabolism is the core system of life, and is deeply involved in many biological functions, such as the metabolic pathways of cancer cells and the fermentation capacity of yeast. The lab develops technologies for quantifying the behavior of central metabolism, technologies for finding key points in data, and technologies for reproducing metabolism inside a computer to test understanding.
*Illustrative imageDeveloping technologies for measuring metabolism
To understand how metabolism works, it is necessary to measure the concentrations of metabolites in cells, the expression levels of enzyme proteins, and the flow of metabolism (metabolic flux). The lab develops technologies for measuring these using mass spectrometers and other instruments.
*Illustrative imageTechnologies for interpreting mechanisms from data
The lab finds clues in data using statistical analysis and existing knowledge, then forms hypotheses and analyzes them. This includes theoretical interpretation that calculates Gibbs free energy changes of reactions from metabolite concentrations, and the development of visualization and analysis tools together with Shimadzu Corporation and others.
*Illustrative imageData-driven metabolic simulation
Aiming to reproduce metabolism on a computer with mathematical metabolic models made up of sets of equations, the lab develops data-driven metabolic simulation technologies that make use of measurement data. Together with Prof. Liao of UCLA and colleagues, the lab developed an ensemble modeling method.
*Illustrative imageElucidating cancer-specific metabolism
Cancer cells convert most of the glucose they take up into lactate and excrete it. The lab studies the significance of this cancer-specific metabolism (the Warburg effect) at the systems level, which is expected to lead to the discovery of new drug targets.
MembersFaculty
The members of the Bio-Information Measurement Lab consist of faculty, secretaries, dispatched staff, and PhD, master's, and undergraduate students.
- ProfessorFumio Matsuda
- Associate ProfessorNobuyuki Okahashi
- Assistant ProfessorTakeo Taniguchi
VoicesStudent voices
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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: “Chromatography apparatus” Giac83 / CC BY-SA 2.5 (cropped)
- Developing technologies for measuring metabolism: “Ion mobility-mass spectrometry workflow” Remilawal / CC BY-SA 4.0 (cropped)
- Technologies for interpreting mechanisms from data: “Liquid chromatograph with a mass spectrometer operating on the principle of flight time in combination with a quadrupole analyzer (qTOF) in CAFIA laboratory, Czech Republic” Sarka Na kopci / CC BY-SA 4.0 (cropped)
- Data-driven metabolic simulation: “Bioréacteur CiYOU” Malvina TERMINI / CC BY-SA 4.0 (cropped)
- Elucidating cancer-specific metabolism: “Glucose metabolism in triple-negative breast cancer cells (Homo sapiens)” Andrawaag / CC BY-SA 4.0 (cropped)
- Related lab (Metabolic Informatics Engineering Lab): “Erlenmeyer TSB fermentation replicates” Luis Fernando Flores LAB / CC BY-SA 4.0 (cropped)
- Related lab (Human Information Engineering Lab): “Virtuality 1000CS VR Headset” RetroEditor / CC BY 4.0 (cropped)
- Related lab (Nonlinear Mathematics Lab): “Lorenz system r28 s10 b2-6666” Computed in Fractint by Wikimol / Public domain (cropped)
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