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The researchers examined the structures of the nearly 50,000 biologically relevant sugars in two major databases of protein structures, the Protein Data Bank (PDB) and PDB_REDO.
We conclude that there are about 33,000 marine species (mainly animals) in the major databases, of which 130 are introduced, 58 listed as threatened and an unknown percentage endemic.
As discussed in Section 5.1, the dictionary used by our system comprises synonyms from two major databases of protein and gene names, UniProtKB and Entrez Gene.
For the identification of potential miRNA targets of the screen hits we used three major databases of computationally predicted miRNA targets using different prediction algorithms to ensure finding as many potential targets as possible.
Searching major databases of systematic reviews, for systematic reviews of adverse effects, proved more difficult than anticipated due to a lack of standard terminology used by the authors, inadequate indexing and the variations in the search interfaces of the databases.
As part of a wider study of methods used in systematic reviews of adverse effects we decided to assess whether we could identify systematic reviews of adverse effects quickly and easily in two major databases of systematic reviews.
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In a comparison of two major databases on alien species distribution in Europe, differences in nomenclature between the databases meant that interpretation of the correlates of alien species richness was dependent on the database used (Hulme and Weser 2011).
The major database of biological macromolecular structure is the worldwide Protein Data Bank (wwPDB), a joint effort of the Research Collaboratory for Structural Bioinformatics (RCSB) in the United States, the Protein Data Bank Europe (PDBe) at the European Bioinformatics Institute in the United Kingdom, and the Protein Data Bank Japan at Ōsaka University.
The sequences obtained for Hirudo transcripts represent the first major database of genes expressed in this important model system.
The other major database of curated gene expression studies, the Gene Expression Atlas (2), provides machine- rather than manually annotated data, resulting in reduced consistency of annotation across studies.
Using the major database of repetitive elements, Repbase [ 32], we list 12 specific repetitive elements for the C. floridanus genome and we give a summary of these elements in Table 1.
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