ACa2 A43 Jurkat All 23 cell linesa bNo. of PK14105 web identified proteins Classical
ACa2 A43 Jurkat All 23 cell linesa bNo. of identified proteins Classical secretion 255 284 292 295 23 229 269 267 383 333 209 280 364 29 253 285 243 74 364 224 266 299 95aNonclassical secretionb 235 304 324 430 250 468 293 206 573 422 487 305 687 390 589 384 350 369 62 39 522 476 796 ,Membrane proteinc 4 6 7 34 7 six six two 39 29 27 8 44 23 7 25 9 4 4 9 20 23 2Othersd 337 463 496 563 377 727 376 PubMed ID:https://www.ncbi.nlm.nih.gov/pubmed/11836068 290 824 559 783 468 ,047 686 92 590 62 539 804 473 80 660 ,269 two,Percentage of predicted secreted proteins 59.9 56.6 56. 57.4 56.0 49.five 60.6 62.6 54.7 58.four 48.0 56.three five. 48.0 48.three 54.0 49.two 50.eight 56. 54.3 50.2 54.7 44.4 55.Proteins predicted by the SignalP program to be secreted by way of the classical secretion pathway (SignalP probability 0.90). Proteins predicted to become secreted by the nonclassical secretion pathway working with SignalP and SecretomeP (SignalP probability 0.90 and SecretomeP score 0.50). c Proteins predicted by the TMHMM to kind integral membrane proteins that had been not predicted to be secreted by way of the classical or nonclassical secretion pathways. d Proteins that could not be classified as classical secreted, nonclassical secreted, or integral membrane proteins.showed that only 34.0 (45 of ,29) and 33.eight (395 of ,69) on the proteins in NPCTW04 and A43 cells, respectively, had been predicted to become secreted (information not shown). On the four,584 proteins identified in this report, ,24 (27. ) had been located within the Human Plasma Proteome Project database (48) (supplemental Table 2). ProteinCenter application was utilized to predict the functions from the four,584 identified proteins according to universal GO annotation terms. These proteins have been linked to at the very least a single annotation term within the GO molecular function and biological method categories, respectively. As shown in Fig. 3A, the top rated 3 most typical molecular functions have been protein binding (63.4 ), catalytic activity (six.3 ), and metal ion binding (30.6 ). The major biological procedure categories integrated metabolic processes (73.eight ) and regulation of biological processes (34.5 ) followed by cell organization (33.7 ) and cell communication (26.8 ) (Fig. 3B). The results of our GO evaluation of identified proteins within the molecular function and biological process categories are shown in supplemental Tables 4 and five, respectively. Overlap of Identified Proteins between All Cell Lines ExaminedThe proteins identified among the 23 cell lines had been analyzed for overlapping members (Table III and supplemental Table 2). One particular hundred and seventytwo proteins (3.8 of your 4,584 proteins) had been detected in all cancer cellsecretomes. About 23.0 on the four,584 proteins had been detected in far more than half ( two) of your cell lines, and 35. were found in three cell 
lines. Almost onethird (i.e. 29.three ) on the 4,584 proteins have been uniquely detected inside the secretome of among the 23 cell lines, and two.six (576 proteins) were identified in two of the 23 cell lines. To lower the number of possible tumor marker candidates, we combined proteins identified within the secretomes of cell lines from each cancer kind to type a list of nonredundant proteins for each cancer sort. These lists were employed to assess the overlap in identified proteins (Table IV and supplemental Table six). A substantial portion (36.three ) of the proteins have been discovered in extra than half (a minimum of six) of the cancer kinds; 33.6 (,539 proteins) were detected in two to 5 cancer forms, and 30. (,38 proteins) were detected in a single cancer kind. Taken with each other, these information reveal that cell lines from differ.
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