Proteins with altered abundance in SDL with a change in average ratio of >2 and a <i>t</i>-test of <i>p</i><0.05.

<p>Characterization of proteins fractionated by 2D-PAGE and identified by both the DeCyder software (all gels, independent <i>t</i>-test, change in average ratio of >2 with a <i>t</i>-test of <i>p</i><0.05 ) and Mass Spectrometry, ranked in order of change in average ratio. From the 11 spots up-regulated in SDL, 11 different proteins were identified. Spot No. is number of the spot picked and shown on an SDL 2D gel (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0038356#pone-0038356-g003" target="_blank">Figure 3A</a>); <i>t</i>-test and change in average ratio calculated by the DeCyder 2D Differential Analysis software when comparing the four SDL with the four ESDL 2D gels; Identified Proteins: full name of the protein identified by mass spectrometry, including isoform, as given by NCBI; NCBI Accession number and Gene ID number together with the official symbol provided by HUGO Gene Nomenclature Committee (HGNC) in brackets; Experimental (E) & Theoretical (T) Molecular mass (in kDa) and p<i>I</i>: the experimental (E) molecular mass and p<i>I</i> were determined by eye for each spot picked, whereas the theoretical (T) molecular mass and p<i>I</i> were determined using EditSeq (DNA lasergene 8) on the protein sequence of gi number identified; Number of peptide matched: total number of unique peptides matched to the protein identified; Mascot protein score: the protein score for that gi number is given. Protein score is defined as -10*Log(P), where P is the probability that the observed match is a random event. Protein scores greater than 66 (>66) are considered significant identifications (p<0.05). Where MSMS was performed, the calculated precursor ion mass and resulting peptide sequences are shown together with the corresponding ion score. The list of all the peptides identified for each spot is given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0038356#pone.0038356.s004" target="_blank">Table S1</a>.