Sequencing of the human genome has opened the way and provided the impetus for building a comprehensive picture of a mammalian cell. Significant efforts are underway in the fields of genomics and proteomics to identify all genes and proteins in a given organism. The goal is a complete map of the genes, gene products and their interaction networks in a functioning cell. The next step in establishing a comprehensive picture of a cell will be to tie the cell's metabolome into the rapidly developing genomic and proteomic maps. A cell's metabolome, however, is such an enormous and complex entity that characterizing it can only be approached in sections. This consortium is now proposing to focus on the lipid section of the metabolome by developing an integrated metabolomic system capable of characterizing the global changes in lipid metabolites ("lipidomics"). Our consortium has developed a Lipid Metabolites and Pathways Strategy, termed LIPID MAPS, that applies a global integrated approach to the study of lipidomics. ... [Information of the supplier]
The official database of Japanese Conference on the Biochemistry of Lipids (JCBL). "LIPID BANK for web" is an open, publicly free database of natural lipids including fatty acids, glycerolipids, sphingolipids, steroids, and various vitamins. The database contains more than 6000 unique molecular structures (ChemDraw cdx format, MDL MOL format), their lipid names (common name, IUPAC), spectral information (mass, UV, IR, NMR and others), and most importantly, literature information. The database lists natural lipids only, and all molecular information is manually curated and approved by experts in lipid research. ... [Information of the supplier]
This site lists all substances and their properties which are reported on in the indexed Landolt-Börnstein volumes. In total, 160 000 organic and inorganic compounds are described by names, molecular structures, chemical abstract numbers and other identifiers. Properties are directly linked to the full documents at Springerlink. Landolt-Börnstein citations are given as "Vol. LB-Group/Volume Chapter: number [, page]: document title" and have a hyperlink to the full-text of the document containing the substance. The short identifier of the LB volume leads to a complete denotation of the reference with a direct link to the respective volume. For several compounds crosslinks to some derivatives are provided, e.g. isotope-marked compounds, hydrates and hydrochlorides. For benzenamine (aniline) for example there is a direct link to the related compounds benzenamine-d7 and aniline hydrochloride/hydrobromide/hydroiodide. Additionally, EINECS numbers (European Inventory of Existing Commercial Chemical Substances) are provided if available. Compounds are linked to NIMS (National Institute for Materials Science) data where disposable. ... [Information of the supplier]
MassBank is the first public repository of mass spectral data for sharing them among scientific research community. MassBank data are useful for the chemical identification and structure elucidation of chemical compounds detected by mass spectrometry. This website counts with the following features: a) distributed database, b) high precision and accurate mass spectra of primary metabolites and secondary metabolites, c) mass spectral search by exact m/z and browsing interface and d) search for merged spectra. A merged spectrum is generated from spectra of the identical compound measured in different CID conditions. The MassBank Record for each merged spectrum includes information of its original spectra. ... [Information of the supplier, modified]
Humans perceive numerous compounds as bitter. The bitterness of a compound often provides a hint to its potential toxicity, and aversion from bitterness helps refrain from consuming poisons. Well known example is strychnine. Some other bitter compounds, such as caffeine, while toxic in high dosages, are palatable and is consumed in large quantities. The amount of bitter compounds is estimated in thousands. But what are these compounds? How similar or different are their chemical properties? Do they act on the same or on different receptors? Is it possible to predict bitterness of a molecule? To enable investigation into these intriguing questions, we established BitterDB, a free and searchable database of bitter compounds. BitterDB currently holds over 550 bitter compounds obtained from the literature and from Merck index and their associated 25 human bitter taste receptors (hT2Rs). BitterDB provides several ways to investigate the bitter world: search for bitter compounds by different criteria, search for bitter molecules with structure similar to a query compound, blast bitter receptors and more. ... [Information of the supplier]
BioMagResBank (BMRB) is the publicly-accessible depository for NMR results from peptides, proteins, and nucleic acids recognized by the International Society of Magnetic Resonance and by the IUPAC-IUBMB-IUPAB Inter-Union Task Group on the Standardization of Data Bases of Protein and Nucleic Acid Structures Determined by NMR Spectroscopy. In addition, BMRB provides reference information and maintains a collection of NMR pulse sequences and computer software for biomolecular NMR. Access to data in BMRB is free directly from its web site (URL http://www.bmrb.wisc.edu) and ftp site (ftp.bmrb.wisc.edu) and will remain so as public funding permits. The concept of a biomolecular NMR data bank was developed under a five-year research grant awarded to the University of Wisconsin-Madison from the National Library of Medicine, National Institutes of Health. ... [Information of the supplier]
ZFIN serves as the zebrafish model organism database. The long term goals for ZFIN are a) to be the community database resource for the laboratory use of zebrafish, b) to develop and support integrated zebrafish genetic, genomic and developmental information, c) to maintain the definitive reference data sets of zebrafish research information, d) to link this information extensively to corresponding data in other model organism and human databases, e) to facilitate the use of zebrafish as a model for human biology and f) to serve the needs of the research community. ... [Information of the supplier]
The Structural Genomics Consortium (SGC) is a not-for-profit organization that aims to determine the three dimensional structures of proteins of medical relevance, and place them in the public domain without restriction. The SGC operates out of the Universities of Oxford and Toronto and Karolinska Institutet, Stockholm. The SGC works on structures of proteins from its Target List of ~2,000 proteins, which comprises human proteins associated with diseases such as cancer, diabetes, inflammation, and genetic diseases, as well as proteins from human parasites such as those that cause malaria. Research at the SGC is divided into three areas: structural genomics of soluble proteins, structural genomics of integral membrane proteins, and structural chemistry of soluble proteins. ... [Information of the supplier]
Ensembl is a joint project between EMBL - European Bioinformatics Institute (EBI) and the Wellcome Trust Sanger Institute (WTSI) to develop a software system which produces and maintains automatic annotation on selected eukaryotic genomes. The Ensembl project aims to provide: accurate, automatic analysis of genome data, analysis and annotation maintained on the current data, presentation of the analysis to all via the web, distribution of the analysis to other bioinformatics laboratories. Ensembl will concentrate on vertebrate genomes, but other groups have adapted the system for use with plant and fungal genomes. ... [Information of the supplier, modified]
Welcome to DAVID Bioinformatics Resources 2003 – 2009. The Database for Annotation, Visualization and Integrated Discovery (DAVID). DAVID 2008 is the sixth version of our original web-accessible programs. DAVID now provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large list of genes. For any given gene list, DAVID tools are able to identify enriched biological themes, particularly GO terms; to discover enriched functional-related gene groups; to search for other functionally related genes; to list interacting proteins; and to link gene-disease associations. ... [Information of the supplier, modified]