Abstract

Oral Sessions

Day 3, June 24（Fri.）　9:20-9:40　Room C (411 and 412)

3C-O1-0920　　PDF

MetaboBank: repository of raw data and related resources for metabolome research

(¹NIG, ²Kazusa DNA Res. Inst., ³Kyoto Univ., ⁴RIKEN, ⁵Kyoto Pref Univ., ⁶NAIST)
^oToshiaki Tokimatsu¹, Yuichi Kodama¹, Asami Fukuda¹, Takatomo Fujisawa¹, Hideki Nagasaki², Takeshi Ara^2,3, Mikiko Takahashi⁴, Sachiko Ohsawa², Norio Kobayashi⁴, Nozomu Sakurai¹, Atsushi Fukushima^4,5, Shigehiko Kanaya⁶, Hideki Hirakawa², Masanori Arita^1,4

MetaboBank is a database including primary repository for metabolome research and related secondary databases for metabolome research.
We launched the first version of MetaboBank repository in October 2020 at DNA Data Bank of Japan (DDBJ) Center. One year later, we have upgraded MetaboBank to version 2 to enhance integration with other biological resources by using standard metadata format with links to BioProject and BioSample records. The new metadata format is based on MAGE-TAB which has been used by functional genomics databases such as ArrayExpress of European Bioinformatics Institutes (EBI) and Genomic Expression Archive (GEA) of DDBJ Center. EBI’s metabolomics database MetaboLights has used ISA-TAB which is an abstracted model of MAGE-TAB. Recently, “SDRF-proteomics” has been developed based on MAGE-TAB as proteomics metadata format and used by EBI’s proteomics database PRIDE. The new MetaboBank MAGE-TAB format allows easier integration with these “omics” database using MAGE-TAB-based formats. The new MetaboBank data are linked with BioProject and BioSample records to realize integration with metabolomics data and related nucleotide sequencing data in INSDC. Public MetaboBank data are provided in Resource Description Framework (RDF) format in addition to MAGE-TAB for semantic integration with National Bioscience Database Center (NBDC) resources.