KomicMarket
| Summary | KomicMarket (Kazusa Omics Data Market) is the database of annotations of the metabolite peaks that were detected by mass spectroteters (MS) in metabolomics studies. Most of the data were obtained with high-resolution MSs connected to liquid chromatograpy (LC).(cited from original site) |
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| Data type | Metabolite repression , mass spectra |
LEGENDA
| Summary | Legenda is the system to find articles in which any pair of gene names, diseases, and substrates are co-occurred in the abstract in MEDLINE. Co-occurrence of the same types (e.g. genes) can be searched. Legenda has its own gene name dictionary. |
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| Data type | Journal , Gene, Disease, Substrate |
LfDB
| Summary | Lectin Frontier DataBase (LfDB) provides quantitative interaction data in terms of the affinity constants (Ka) of a series of lectins toward a panel of pyridylaminated (PA) glycans obtained by an automated frontal affinity chromatography with fluorescence detection (FAC-FD) system (Fig. 1). Since the data are accurate and reliable, providing the absolute values of sugar-protein interactions, LfDB would be a valuable resource in the studies of glycan-related biology.(cited from the original site) |
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| Data type | Sugar chain ,Lectin |
LigandBox
| Summary | LigandBox(LIGANDs Data Base Open and eXtensible) is a 'ready-to-dock' database of small chemical compounds, for virtual drug screening on computer docking studies. It contains the 3D molecular structures including full hydrogen atoms with atomic charges for each compounds. LigandBox has been developed by JBIC, as one component of the molecular simulation system myPresto, supported by NEDO. 3D conformations of compounds were generated from 2D structural data, kindly provided by Namiki Shoji Co.,Ltd. Compounds from Namiki Shoji Co.,Ltd can be ordered to each company through each inquiry web page. Chemical structures in this database were computationally generated, may not be identical to structures of compounds stored in supplying companies. |
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| Data type | Small molecule structure |
MassBank
| Summary | MassBank has been developed with the Institute for Advanced Biosciences, Keio University (IAB) Analytical Chemistry Group, RIKEN Plant Science Center (PSC) Metabolomics Research Group as a high-resolution mass spectral database by JST-BIRD project. MassBank provides the similar spectrum search, the compound search, and peak search services. Also, MassBank was recognized as the official mass spectral database of Mass Spectrometry Society of Japan at 2008. The results of the NEDO project was contained. (Excerpt from the original site) |
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| Data type | mass spectral data |
MassBase
| Summary | The concept of metabolomics is emerged as a new omics layer of system biology in this several years, but a flood of publicly available data for bioinformatics research is not observed yet. MassBase is an archive of a huge amount of mass spectrum tags (MST) include both known and unknown assigned (or predicted) peaks which are found in biological samples (mainly from plants) and standard chemical reagents for peak annotation. The aim of the database is to enhance the bioinformatics research of metabolomics using a huge metabolomics dataset. Over 39,100,000 peaks from 7,600 MSTs by GC-MS, 7,100 MSTs by LC-MS, and 28,800 MSTs by CE-MS are archived as text format files with its binary raw data files. Scanned mass spectra (SMS), a text format list of mass signals in all scans of a binary raw data are also archived. It should help to verify a computational peak assignment and to study an improvement of a quality of peak assignment. All dataset is freely downloadable from this site. To expand the dataset by using another type of MS instruments (e.g. CE-MS) are planned in near future. MassBase developed at Kazusa DNA research institute and supported by the NEDO project. (cited from the original site) |
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| Data type | Metabolite repression |
MEDALS
| Summary | The outcome is this portal site. This provides various informationon databases and analysis tools for life science which weredeveloped by the projects directly sponsored by METI (Ministry of Economy, Trade and Industry), or developedby the Institutes sponsored by METI. The name of the site, "MEDALS",stands for METI Database portal for Life Science. It opened on October 29, 2008. |
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| Data type | metadata |
mFAERS
| Summary | mFAERS provides information on intractable diseases designated by the Ministry of Health, Labor and Welfare in a coordination with side effects reported in the FDA Adverse Event Reporting System (FAERS). FAERS is a drug adverse event (side effect) reporting system operated by the US Food and Drug Administration (FDA). mFAERS system creates a database of FAERS public data and provides searches by drug name, disease name, and side effect name. It also scores and displays the association between medications and side effects. |
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| Data type | Adverse event reports of drugs |
MFSearcher
| Summary | Kazusa Molecular Formula Searcher is a RESTful Web service, by which researchers can promptly get possible molecular formulae from accurate mass as a query(cited from original site). |
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| Data type | Metabolite repression |
Microbial Risk Information Database
| Summary | Microbial Hazard Information Database (M-RINDA) is a comprehensive site for harmful information on microorganisms (bacteria and fungi) provided by NBRC. |
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| Data type | Microbiological risk | DNA-sequence | Amino acid sequence |