A collaborative framework for human missing protein data sharing…
image source:http://filthy-frank.wikia.com/wiki/Chromosomes?file=Chromosome.jpg
brief information
The MissingProteinPedia is a protein data and information sharing web system that aims to collate any relevant data ‘Missing proteins’ as defined by neXtProt. At its core is a schema-less database-driven web system allowing captures of all PE2-4 protein PubMed data, based on gene and protein including synonyms. The database also allows unpublished, preliminary or proprietary data (e.g., antibody, MS, cell biological and genetic studies) to be shared with collaborators via a protected interface.
MissingProteinPedia facilitates the Human Proteome Project (HPP) cross-disciplinary collaboration by providing a complimentary, unfiltered, lower stringency perspective to both the HPP metrics and guidelines approaches, enabling community evaluation and scrutiny. MissingProteinPedia incorporates text mining technology to fetch and search accumulated UniProt, GeneCards, GeneRifs, PubMed PE2-4 data. Besides, MissingProteinPedia summarizes publicly available MS data from PRIDE, GPMDB, ProteomicsDB and MaxQB for relevant PE2-4 proteins. It allows community administrators to curate information before web publication.
We encourage all visitors to browse and contribute to 'finding' these proteins by sharing any relevant information on them that we may have missed!
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list of proteins
| Protein ID | Gene ID | Protein Name | Chromosome ID | Gene Name | Tag(s) | |
|---|---|---|---|---|---|---|
| A5PLL1 | ANKRD34B | Ankyrin repeat domain-containing protein 34B | Chromosome-5 | Ankyrin repeat domain-containing protein 34B | ||
| A5PLN7 | FAM149A | Protein FAM149A | Chromosome-4 | Protein FAM149A | ||
| A6BM72 | MEGF11 | Multiple epidermal growth factor-like domains protein 11 | Chromosome-15 | Multiple epidermal growth factor-like domains protein 11 | ||
| A6NC42 | DPPA5 | Developmental pluripotency-associated 5 protein | Chromosome-6 | Developmental pluripotency-associated 5 protein | ||
| A6NC51 | TMEM150B | Transmembrane protein 150B | Chromosome-19 | Transmembrane protein 150B | ||
| A6NCE7 | MAP1LC3B2 | Microtubule-associated proteins 1A/1B light chain 3 beta 2 | Chromosome-12 | Microtubule-associated proteins 1A/1B light chain 3 beta 2 | ||
| A6NCF5 | KLHL33 | Kelch-like protein 33 | Chromosome-14 | Kelch-like protein 33 | ||
| A6NCI4 | VWA3A | von Willebrand factor A domain-containing protein 3A | Chromosome-16 | von Willebrand factor A domain-containing protein 3A | ||
| A6NCL1 | GMNC | Geminin coiled-coil domain-containing protein 1 | Chromosome-3 | Geminin coiled-coil domain-containing protein 1 | ||
| A6NDD5 | SYNDIG1L | Synapse differentiation-inducing gene protein 1-like | Chromosome-14 | Synapse differentiation-inducing gene protein 1-like | ||
| A6NE01 | FAM186A | Protein FAM186A | Chromosome-12 | Protein FAM186A | ||
| A6NF34 | ANTXRL | Anthrax toxin receptor-like | Chromosome-10 | Anthrax toxin receptor-like | ||
| A6NF83 | NUPR1L | Nuclear transcriptional regulator 1-like protein | Chromosome-7 | Nuclear transcriptional regulator 1-like protein | ||
| A6NFC5 | TMEM235 | Transmembrane protein 235 | Chromosome-17 | Transmembrane protein 235 | ||
| A6NFD8 | HELT | Hairy and enhancer of split-related protein HELT | Chromosome-4 | Hairy and enhancer of split-related protein HELT | ||
| A6NFH5 | FABP12 | Fatty acid-binding protein 12 | Chromosome-8 | Fatty acid-binding protein 12 | ||
| A6NFK2 | GRXCR2 | Glutaredoxin domain-containing cysteine-rich protein 2 | Chromosome-5 | Glutaredoxin domain-containing cysteine-rich protein 2 | ||
| A6NFQ7 | DPRX | Divergent paired-related homeobox | Chromosome-19 | Divergent paired-related homeobox | ||
| A6NFX1 | MFSD2B | Major facilitator superfamily domain-containing protein 2B | Chromosome-2 | Major facilitator superfamily domain-containing protein 2B | ||
| A6NGG3 | C9orf92 | Putative uncharacterized protein C9orf92 | Chromosome-9 | Putative uncharacterized protein C9orf92 |
Publications to be cited for using MPP data and services
| Islam, M.T. et al. Protannotator: A Semiautomated Pipeline for Chromosome-Wise Functional Annotation of the “Missing” Human Proteome. Journal of Proteome Research 13 (1), 76-83, doi: 10.1021/pr400794x (2014) |
| Islam, M.T. et al. A systematic bioinformatics approach to identify high quality MS data and functionally annotate proteins and proteomes. Methods Mol. Biol.1549, 163–176, doi: 10.1007/978-1-4939-6740-7_13 (2016) |
| Baker, M. S. et al. Accelerating the search for the missing proteins in the human proteome. Nat. Commun. 8, 14271 doi: 10.1038/ncomms14271 (2017). |
| Islam, M.T. et al. Missing ProteinPedia - under preparation. |
All to contact us
Professor Mark S. Baker
Professor Shoba Ranganathan