Biology Reference
In-Depth Information
Following the same principle, a MIAPE (Minimum Information About a
Proteomics Experiment) format is currently being defined. These for-
mats are set to enable the unambiguous interpretation of the results of an
experiment and to allow its reproduction.
d
The MIAPE project is carried out by a working group in charge of
defining standardized formats for proteomics experiments. This work-
ing group is one of several, all launched through the Proteomics
Standards Initiative (PSI) of the Human Proteome Organisation
(HUPO).
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Besides being involved in setting a standardized general
proteomics format, the PSI supports other working groups in
key areas of proteomics. These include 2-DE, MS, and protein-
protein interaction data. The MIAPEGelDB
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was set up by the PIG
to facilitate the submission of required data for the MIAPE Gel
Electrophoresis module.
4.2. Integrative Proteomics Data
Various independent sources are available for the manual or automated
extraction of relevant information related to a sequence or a collection of
sequences. However, the reliability of all extracted information needs to
be ascertained. The different sources need to be cross-checked, and further
digging into mass data is possibly involved. Only then can contextual
constraints be reliably expressed for characterizing protein structure,
function, modifications, and interactions. These characteristics constitute
what is often called “sequence annotation”. Well-annotated biological
data are clearly valuable for interpreting experimental results.
The move towards integration was initiated years ago by some of the
most established and recognized bioinformatics resources, among them
UniProt (see Chapter 6), KEGG, and FlyBase, to name just a few. They
centralized information from multiple sources, and the resultant knowledge
is comparable to that of an encyclopedia.
d
This is the mission of the HUPO Proteomics Standards Initiative (http://www.
psidev.info).
