Protein evidence information
Missing Proteinpedia summarizing known infomration on missing proteins (PE2-PE5) were launched by Macquerie University, Sydney.
Protein evidence summary
- Full list of missing proteins is available at nextprot in SPARQL Protocol and RDF Query Language (SPARQL) here (added February 21, 2017).
- Article in the second special issue of Journal of Proteome Research on protein evidence metrics for the Human Proteome Project 2013−2014 and strategies for finding missing proteins is available here.
- Updated Master Table to be used by all authors submitting manuscripts for the JPR 2014 special issue is available here. This is the slide 30 from the presentation of Gilbert Ommen made at HPP Plenary session at HUPO 2013 (Yokohama, Japan) on September 18, 2013 (added on September 23, 2013).
- Summary of protein revidence in NeXtProt, Human Peptide Atlas, GPMdb and Human Protein Atlas with respect to Ensembl Protein coding gene list is vailable in excel sheet (December 3, 2012).
- All chromosomes in Protein Atlas in Protein_Atlas_all_chr.xlsx.
- All chromosomes in Nextprot in Nextprot_Chromosome_stats.xlsx.
- All chromosomes in PeptideAtlas at http://www.peptideatlas.org/hupo/c-hpp/.
- Uptodate information on protein evidence from GPMDB is available on the following RSS feed here. This list is updated weekly (contact person: Ronald Beavis). The RSS feed is available directly here:
- Updated data on protein evidence of Peptide Atlas and NeXtProt per chromosome is available online here.
Statistics of protein evidence in NextProt
- Regularly updated general statistics on protein validation status for each chromosome is available at NextProt. Interactive chart to represent the current status of missing proteins is available here. The latest version of neXtProt is 2018-01-17 and contains 2186 missing proteins (sum of PE2,PE3,PE4 entries).
- Detailed information for each chromosome including the presence of SNPs, PTMs, splice variants and other information is available at NextProt.
Summary of protein evidence using Human Protein Atlas (HPA) data
- Summary of protein evidence based on antibody generated within the Human Protein Atlas for all chromosomes according to data avaiable until August 2013. This information is not yet published, confidential is is only accessible to registered persons member to C-HPP consortium and the information is available here. Explanation of protein evidence score in Human Protein Atlas is available here.
- The Human Protein Atlas has reached a major milestone by releasing protein data for more than 80% of the human protein-coding genes and RNA expression data for more than 90% of the genes. The normal tissue atlas now provide a distribution map of both protein and gene expression.
Peptide Atlas Chromosome Centric
Pepetide atlas provides list of protein evidence for each chromsome online here.
SWATH Atlas resources for >10 000 proteins
Fragment library of unique peptides > 10 000 proteins is available at SWATH Atlas.
SRM Atlas for peptide detection resources
SRM Atlas contains collections of MRM assays for various set of proteins and for different mass spectrometers.