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 The database also allows unpublished, preliminary or proprietary data (e.g., antibody, MS, cell biological and genetic studies) to be shared with collaborators via a protected interface.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) | |
|---|---|---|---|---|---|---|
| A6NHG4 | DDTL | D-dopachrome decarboxylase-like protein | Chromosome-22 | D-dopachrome decarboxylase-like protein | ||
| Q96NX9 | DACH2 | Dachshund homolog 2 | Chromosome-X | Dachshund homolog 2 | ||
| Q8N907 | DAND5 | DAN domain family member 5 | Chromosome-19 | DAN domain family member 5 | ||
| Q5SW24 | DACT2 | Dapper homolog 2 | Chromosome-6 | Dapper homolog 2 | ||
| Q5T197 | DCST1 | DC-STAMP domain-containing protein 1 | Chromosome-1 | DC-STAMP domain-containing protein 1 | ||
| Q5T1A1 | DCST2 | DC-STAMP domain-containing protein 2 | Chromosome-1 | DC-STAMP domain-containing protein 2 | ||
| Q5VW00 | DCAF12L2 | DDB1- and CUL4-associated factor 12-like protein 2 | Chromosome-X | DDB1- and CUL4-associated factor 12-like protein 2 | ||
| Q6ZMT9 | DTHD1 | Death domain-containing protein 1 | Chromosome-4 | Death domain-containing protein 1 | ||
| A0PJE2 | DHRS12 | Dehydrogenase/reductase SDR family member 12 | Chromosome-13 | Dehydrogenase/reductase SDR family member 12 | ||
| Q6PKH6 | DHRS4L2 | Dehydrogenase/reductase SDR family member 4-like 2 | Chromosome-14 | Dehydrogenase/reductase SDR family member 4-like 2 | ||
| Q9P2X7 | DEC1 | Deleted in esophageal cancer 1 | Chromosome-9 | Deleted in esophageal cancer 1 | ||
| Q9Y238 | DLEC1 | Deleted in lung and esophageal cancer protein 1 | Chromosome-3 | Deleted in lung and esophageal cancer protein 1 | ||
| Q8WZ79 | DNASE2B | Deoxyribonuclease-2-beta | Chromosome-1 | Deoxyribonuclease-2-beta | ||
| Q8N2C3 | DEPDC4 | DEP domain-containing protein 4 | Chromosome-12 | DEP domain-containing protein 4 | ||
| A6NC42 | DPPA5 | Developmental pluripotency-associated 5 protein | Chromosome-6 | Developmental pluripotency-associated 5 protein | ||
| Q6W0C5 | DPPA3 | Developmental pluripotency-associated protein 3 | Chromosome-12 | Developmental pluripotency-associated protein 3 | ||
| O95424 | DEXI | Dexamethasone-induced protein | Chromosome-16 | Dexamethasone-induced protein | ||
| Q6ZPD8 | DGAT2L6 | Diacylglycerol O-acyltransferase 2-like protein 6 | Chromosome-X | Diacylglycerol O-acyltransferase 2-like protein 6 | ||
| O43506 | ADAM20 | Disintegrin and metalloproteinase domain-containing protein 20 | Chromosome-14 | Disintegrin and metalloproteinase domain-containing protein 20 | ||
| Q9UKJ8 | ADAM21 | Disintegrin and metalloproteinase domain-containing protein 21 | Chromosome-14 | Disintegrin and metalloproteinase domain-containing protein 21 |
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