Biology:Multi-Omics Profiling Expression Database

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MOPED
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DescriptionMOPED enables discoveries through consistently processed multi-omics data
Contact
Research centreSeattle Children's Research Institute
Author(s)Roger Higdon
Primary citationHigdon R, et al.[1]
Release date2012
Access
WebsiteMOPED

The Multi-Omics Profiling Expression Database (MOPED) was an expanding multi-omics resource that supports rapid browsing of transcriptomics and proteomics information from publicly available studies on model organisms and humans.[2] As to date (2021) it has ceased activities and is unaccessible online.[3]

Systematic Protein Investigative Research Environment

MOPED is designed to simplify the comparison and sharing of data for the greater research community. MOPED employs the standardized analysis pipeline SPIRE[4] to uniquely provide protein level absolute and relative expression data, meta- analysis capabilities and quantitative data. Processed relative expression transcriptomics data were obtained from the Gene Expression Omnibus (GEO). Data can be queried for specific proteins and genes, browsed based on organism, tissue, localization and condition, and sorted by false discovery rate and expression. MOPED empowers users to visualize their own expression data and compare it with existing studies. Further, MOPED links to various protein and pathway data- bases, including GeneCards, Panther, Entrez, UniProt, KEGG, SEED, and Reactome. Protein and gene identifiers are integrated from GeneCards (cross-referenced with MOPED), Genbank, RefSeq, UniProt, WormBase, and Saccharomyces Genome Database (SGD). The current version of MOPED (MOPED 2.5, 2014) contains approximately 5 million total records including ~260 experiments and ~390 conditions. MOPED is developed and supported by the Kolker team at Seattle Children's Research Institute.

Model Organism Protein Expression Database

MOPED was previously known as the Model Organism Protein Expression Database, before changing its name to the Multi-Omics Profiling Expression Database.[5][6]

References

  1. ↑ Higdon R; Stewart E; Stanberry L; Haynes W; Choiniere J; Montague E; Anderson N; Yandl Y et al. (Jan 2014). "MOPED enables discoveries through consistently processed proteomics data.". J Proteome Res 13 (1): 107–113. doi:10.1021/pr400884c. PMID 24350770. 
  2. ↑ "MOPED: Model Organism Protein Expression Database". Nucleic Acids Res. 40 (Database issue): D1093–9. Jan 2012. doi:10.1093/nar/gkr1177. PMID 22139914. 
  3. ↑ "Start Moped Web Application". https://www.proteinspire.org/MOPED/. 
  4. ↑ "SPIRE: Systematic protein investigative research environment". J Proteomics 75 (1): 122–6. December 2011. doi:10.1016/j.jprot.2011.05.009. PMID 21609792. 
  5. ↑ Kolker, Eugene; Higdon, Roger; Haynes, Winston; Welch, Dean; Broomall, William; Lancet, Doron; Stanberry, Larissa; Kolker, Natali (2011-12-01). "MOPED: Model Organism Protein Expression Database". Nucleic Acids Research 40 (D1): D1093–D1099. doi:10.1093/nar/gkr1177. ISSN 1362-4962. PMID 22139914. PMC 3245040. https://doi.org/10.1093/nar/gkr1177. 
  6. ↑ Montague, Elizabeth; Janko, Imre; Stanberry, Larissa; Lee, Elaine; Choiniere, John; Anderson, Nathaniel; Stewart, Elizabeth; Broomall, William et al. (2015-01-28). "Beyond protein expression, MOPED goes multi-omics" (in en). Nucleic Acids Research 43 (D1): D1145–D1151. doi:10.1093/nar/gku1175. ISSN 1362-4962. PMID 25404128. PMC 4383969. http://academic.oup.com/nar/article/43/D1/D1145/2439032/Beyond-protein-expression-MOPED-goes-multiomics. 

Further reading



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