We regularly update the data of each project. That means that we add data (posttranslational modification sites) to already published projects or update the corresponding database version. For example, an update from IPI version 3.13 to IPI version 3.24 results into new peptide-to-protein assignments. Therefore, it is highly required to keep uptodate by newsletters, which will be send around every two months (see 'contact').
If you intend to download a specific data set (in .csv format), you have to right click on the link and choose the option 'Save Target As' or 'Save Link As'. The database versions are described here.
H. sapiens (IPI 3.24): Olsen et al. (Cell, 2006) (Phosphoproteome)
Daub et al. (Mol Cell, 2007) (Phosphoproteome)
Oppermann et al. (Mol Cell Proteomics, 2009) (Phosphoproteome)
Olsen et al. (Science Signal, 2010) (Phosphoproteome)
Choudhary et al. (Science, 2009) (Acetylome)
M. musculus (IPI 3.69): Pan et al. (Proteomics, 2008) (Phosphoproteome)
Zanivan et al. (J Proteome Res, 2008) (Phosphoproteome)
Wisniewski et al. (J Proteome Res, 2010) (Phosphoproteome)
Weintz et al. (Mol Syst Biol, 2010) (Phosphoproteome)
Zielinska et al. (Cell, 2010) (N-Glycoproteome)
D. melanogaster (FlyBase 5.4): Hilger et al. (Mol Cell Proteomics, 2009) (Phosphoproteome)
C. elegans (Wormbase 200): Zielinska et al. (J Proteome Res, 2009) (Phosphoproteome)
S. cerevisiae (Yeast ORF): Gnad et al. (Proteomics, 2009) (Phosphoproteome)
E. coli: Macek et al. (Mol Cell Proteomics, 2008) (Phosphoproteome)
B. subtilis: Macek et al. (Mol Cell Proteomics, 2007) (Phosphoproteome)
L. lactis: Soufi et al. (Proteomics, 2008) (Phosphoproteome)
H. salinarium: Aivaliotis et al. (PLoS One, 2009) (Phosphoproteome)