Format of .prp ProtPlot data files

The ProtPlot data is contained in a set of tissue- and histologic-specific .prp files. The set of .prp files constituting the ProtPlot database is included when you download ProtPlot. A .prp file is named using the following convention:

   {tissue name}_{histologic state}_tot.prp
where:
   {tissue name} could be: brain, prostate, or pancreas, etc. See the
            database file 'tissueNamesFile.txt' for a list of tissue names.
   {histologic state} can be a disagnosis category: normal, precancer, or cancer.

The data in the initial startup must have the following fields: (pI, Mw, SP-ID, SP-ACC, expression, tissue). On subsequent addition of data using the (File menu | Use new PRP data file with this working database), it only requires (SP-ID, expression) since it will get the rest of the missing data from Master Protein Index entry.

'pI'	'Molecular Mass' 'SP-ACC' 'SP-ID          'MaxESTexpr' 'Tissue' 'Family'
6.74	 31544            O00108   AQP3_HUMAN      0.044334972  30       1
5.05     44106            P08727   K1CS_HUMAN      0.152709348  30       1
9.58      9330            P42677   RS27_HUMAN      0.004975124  30       1
                 . . .

where the following lists the files (case-independent) and their alternate names:

1. 'pI' is the estimated isoelectric point of the protein. It is a decimal number (e.g., 4.61). Alternate names: (pI, pIe)
2. 'Molecular Mass' is the molecular mass in Daltons (not KiloDatons!). Alternate names: (Mw, Molecular Mass)
3. 'SP-ACC' is the SwissProt Accession number. Alternate names: (SP_ACC, SP-ACC, SPACC, "SwissProt Acc")
4. 'SP-ID' is the SwissProt ID. Alternate names: (SP_ID, SP-ID, SPID, "SwissProt ID")
5. 'GB-ID' is the GenBank ID (optional field). Alternate names: (GB_ID, GB-ID, GBID, "GenBank ID")
6. 'MaxESTexpr' is the derived expression in the range of 0.0 to 1.0. Missing proteins are not entered. (NOTE: in the master protein index computed across all samples, 0.0 indicates there is no protein for a particular tissue when refering to its expression as part of the expression profile.) See discussion on how MaxESTexpr is computed for ProtPlot. Alternate names: (GB_ID, GB-ID, GBIDMaxESTexpr, "Max EST expr", estExpr, expr, expression).
7. 'Tissue' specifies the tissue(s) that constitute the sample. Alternate names: (Tissue, "Tissue Name"). It is either:
   1. a tissue number from the 'tissueNamesFile.txt' file, or
   2. a hexadecimal bit pattern of several tissue numbers (eg. a mixture of tissues), then it is represented by the sum of (2**tissue(i)) for a set of n tissues.
8. 'Family' is the protein families that the protein belongs to. It is a hexadecimal bit pattern of several protein family numbers from the 'familyNamesFile.txt' file. The mixture of families is sum of (2**family(i)) for a set of n families.. Alternate names: (Family, "Family Name", "Protein Family", "Protein Family Name"). [FUTURE] (This data is optional).