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Goto Lab (Life Science Integrated Database Division, National Institute of Genetics)
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The lab develops integrated databases that connect the vast amounts of data in life science.
AboutAbout the lab
Connecting life data and putting it to use.
The Goto Lab researches and develops integrated databases for biological information and its use.
Omics data from humans and many other organisms is being generated in huge volumes, and databases to handle that data, along with mechanisms that help interpret it, have become increasingly important.
In addition to developing databases, the lab works on methods and tools that use databases to infer function, and on supporting the extraction of knowledge from the literature.
The lab is located at the Database Center for Life Science (DBCLS), where students also do most of their research.
Key terms
- Omics
- A research approach that examines genes, proteins, metabolites, and so on comprehensively as a whole, rather than one at a time
- Knowledge graph
- Huge, network-like data that represents the relationships between pieces of data by connecting them with nodes and edges
- Metagenome
- The genomes of the many microorganisms living in places such as soil or the gut, read out together
NewsLab news
Developed "AutoFixMark", a tool that predicts from genomes whether a CO₂ fixation pathway is present, through a collaborative research project
Released "Enteropathway", a database of metabolic pathways of gut bacteria, through a collaborative research project
ResearchResearch themes
The lab develops databases that integrate omics data with its functional information, as well as methods and tools that use those databases to infer functional information. It also works on applications to real-world problems and on supporting the extraction of the knowledge that underlies the databases.
*Illustrative imageDatabase Integration with Knowledge Graphs
Databases scattered around the world are given meaning through a common framework called RDF and handled as one huge connected graph (a knowledge graph). The lab develops methods for building knowledge graphs and the underlying technologies for efficiently retrieving data from them.
*Illustrative imagePredicting Function from Omics Data
In collaboration with experimental researchers, the lab is building frameworks for evaluating function from genomes and metagenomes. It is compiling information on the growth environments of microorganisms, gathered from the literature and databases, into a knowledge base, and is exploring applications such as predicting culture conditions.
*Illustrative imageDeveloping Text Mining
To make usable the knowledge that is not in databases and exists only in the literature, the lab has researched and developed literature-processing technologies. Toward a foundation that can be used for tasks such as inferring gene function, it is pursuing research that supports converting the knowledge in the literature into RDF.
MembersFaculty
- Visiting ProfessorSusumu Goto
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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: “Datacenter Server Racks ( )” Carl Lender / CC BY 2.0 (cropped)
- Database Integration with Knowledge Graphs: “Human interactome” Keiono / CC BY-SA 3.0 (cropped)
- Predicting Function from Omics Data: “Colonie batteriche o vita marina?” Chiara.marraccini / CC BY-SA 4.0 (cropped)
- Developing Text Mining: “Wooden Card Catalog Furniture” MarkBuckawicki / CC0 (cropped)
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