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. 2015 Apr 29:2015:bav038.
doi: 10.1093/database/bav038. Print 2015.

NeuroPep: a comprehensive resource of neuropeptides

Affiliations

NeuroPep: a comprehensive resource of neuropeptides

Yan Wang et al. Database (Oxford). .

Abstract

Neuropeptides play a variety of roles in many physiological processes and serve as potential therapeutic targets for the treatment of some nervous-system disorders. In recent years, there has been a tremendous increase in the number of identified neuropeptides. Therefore, we have developed NeuroPep, a comprehensive resource of neuropeptides, which holds 5949 non-redundant neuropeptide entries originating from 493 organisms belonging to 65 neuropeptide families. In NeuroPep, the number of neuropeptides in invertebrates and vertebrates is 3455 and 2406, respectively. It is currently the most complete neuropeptide database. We extracted entries deposited in UniProt, the database (www.neuropeptides.nl) and NeuroPedia, and used text mining methods to retrieve entries from the MEDLINE abstracts and full text articles. All the entries in NeuroPep have been manually checked. 2069 of the 5949 (35%) neuropeptide sequences were collected from the scientific literature. Moreover, NeuroPep contains detailed annotations for each entry, including source organisms, tissue specificity, families, names, post-translational modifications, 3D structures (if available) and literature references. Information derived from these peptide sequences such as amino acid compositions, isoelectric points, molecular weight and other physicochemical properties of peptides are also provided. A quick search feature allows users to search the database with keywords such as sequence, name, family, etc., and an advanced search page helps users to combine queries with logical operators like AND/OR. In addition, user-friendly web tools like browsing, sequence alignment and mapping are also integrated into the NeuroPep database. Database URL: http://isyslab.info/NeuroPep

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Figures

Figure 1.
Figure 1.
An overview of the user interface of NeuroPep. (A) The browse output of NPY neuropeptide family. (B) An example of an entry NP03900 of the NPY family. (C) The properties page of the entry NP03900. (D) The structure view page of the entry NP03900.
Figure 2.
Figure 2.
(A) The neuropeptide frequency distribution based on phyla. (B) The neuropeptide family distribution based on phyla.
Figure 3.
Figure 3.
(A) The amino acid composition distribution of neuropeptides in NeuroPep database. (B) The amino acid length distribution of neuropeptides in NeuroPep database.

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