Peptide Finder Info

The identification of unknown amino acid sequences of peptides as well as protein identification is of great significance in proteomics. Here we present a publicly available web application that facilitates a high resolution mapping of measured molecular weights to peptides and proteins, irrespectively of the enzyme/digestion method used. Furthermore, multi-filtering may be applied in terms of measured mass tolerance, molecular weight and isoelectric point range as well as pattern matching to refine the results. This approach serves complementary to the existing solutions for protein identification and gives insights in novel peptides discovery and protein identification at the cases where the identification scores from the other approaches may be below significance threshold. Peptide Finder has been proven useful in proteomics procedures with experimental data from MALDI-TOF. Peptide Finder has been developed and hosted by the Academy of Athens Foundation for Biomedical Research in collaboration with the National and Technical University of Athens.

This work has been published as:

Alexandridou A, Tsangaris GT, Vougas K, Nikita K, Spyrou G.
"Peptide Finder: mapping measured molecular masses to peptides and proteins"
Bioinformatics. 2008 Oct 1;24(19):2267-9.

For more information about the responsible research group, you can visit the Biomedical Informatics Group

Proteomics Analysis & Peptide Fragments

firefox Peptide Fragments are all the possible partitions of amino acids in a protein from one amino acid (1-peptide) to all the amino acids (the whole protein). Each fragment has a molecular weight that is used in mass spectrometry analysis with precision .01 dalton. Mass spectrometry tools (MALTI) give information of the molecular weight of some possible fragments the sequenses of which are unknown. At this point is where OREA comes usefull since it uses a molecular weight as an input and it gives information for the sequence of all registered fragments. It should be noted that because of hardware restrictions the range of molecular weights OREA is using is up to 10Kdaltons.