{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,3]],"date-time":"2026-03-03T13:33:15Z","timestamp":1772544795618,"version":"3.50.1"},"reference-count":16,"publisher":"Oxford University Press (OUP)","issue":"19","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2011,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Neuropeptides are essential for cell\u2013cell communication in neurological and endocrine physiological processes in health and disease. While many neuropeptides have been identified in previous studies, the resulting data has not been structured to facilitate further analysis by tandem mass spectrometry (MS\/MS), the main technology for high-throughput neuropeptide identification. Many neuropeptides are difficult to identify when searching MS\/MS spectra against large protein databases because of their atypical lengths (e.g. shorter\/longer than common tryptic peptides) and lack of tryptic residues to facilitate peptide ionization\/fragmentation. NeuroPedia is a neuropeptide encyclopedia of peptide sequences (including genomic and taxonomic information) and spectral libraries of identified MS\/MS spectra of homolog neuropeptides from multiple species. Searching neuropeptide MS\/MS data against known NeuroPedia sequences will improve the sensitivity of database search tools. Moreover, the availability of neuropeptide spectral libraries will also enable the utilization of spectral library search tools, which are known to further improve the sensitivity of peptide identification. These will also reinforce the confidence in peptide identifications by enabling visual comparisons between new and previously identified neuropeptide MS\/MS spectra.<\/jats:p>\n               <jats:p>Availability: \u00a0http:\/\/proteomics.ucsd.edu\/Software\/NeuroPedia.html<\/jats:p>\n               <jats:p>Contact: \u00a0bandeira@ucsd.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary materials are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr445","type":"journal-article","created":{"date-parts":[[2011,8,6]],"date-time":"2011-08-06T03:40:04Z","timestamp":1312602004000},"page":"2772-2773","source":"Crossref","is-referenced-by-count":78,"title":["NeuroPedia: neuropeptide database and spectral library"],"prefix":"10.1093","volume":"27","author":[{"given":"Yoona","family":"Kim","sequence":"first","affiliation":[{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"}]},{"given":"Steven","family":"Bark","sequence":"additional","affiliation":[{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"}]},{"given":"Vivian","family":"Hook","sequence":"additional","affiliation":[{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"},{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"},{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"},{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"}]},{"given":"Nuno","family":"Bandeira","sequence":"additional","affiliation":[{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"},{"name":"1 Department of Electrical and Computer Engineering, 2Skaggs School of Pharmacy and Pharmaceutical Sciences, 3Department of Neurosciences, 4Department of Pharmacology, 5Department of Medicine and 6Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0744, USA"}]}],"member":"286","published-online":{"date-parts":[[2011,8,5]]},"reference":[{"key":"2023012512004715100_B1","doi-asserted-by":"crossref","first-page":"4992","DOI":"10.1021\/pr800394e","article-title":"Neuropeptidomics of the supraoptic rat nucleus","volume":"7","author":"Bora","year":"2008","journal-title":"J. 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