Table 4. Protein name for each signature used in the computational experiment. Protein Name Entrez GeneID Official gene name provided by HUGO Gene Nomenclature Committee (HGNC) doi:10.1371/journal.pone.0003111.t004 Table 5. Report of the results of the 24 classifiers when using the 18-Protein biomarker. Classifier Grand Total OVERALL (‘‘AD’’+‘‘MCI’’) AD Er. NAD Er. Test Set ‘‘AD’’ AD Er. Test Set ‘‘MCI’’ NAD Er. AD Er. NAD Er. In signature 18 10 6 x x x x x x x x x x x x x x x x x x 22 3 3 5 5 6.1 4 3 3 3 3 3 3 10 5 9 4.6 5 5.7 x x x x x x x x x x x x x x x x 25 8 9 9 9 8.3 13 14 14 14 13 13 12 10 11 10 10 9 10.5 Alzheimer 5 x x x x x angiopoietin 2 chemokine (C-C motif) ligand 5 chemokine (C-C motif) ligand 7 chemokine (C-C motif) ligand 15 chemokine (C-C motif) ligand 18 (pulmonary and activation-regulated) interleukin 8 epidermal growth factor (beta-urogastrone) colony stimulating factor 3 (granulocyte) glial cell derived neurotrophic factor intercellular adhesion molecule 1 (CD54), human rhinovirus receptor insulin-like growth factor binding protein 6 interleukin 1, alpha interleukin 3 (colony-stimulating factor, multiple) interleukin 6 (interferon, beta 2) interleukin 11 colony stimulating factor 1 (macrophage) platelet-derived growth factor beta polypeptide (simian sarcoma viral (v-sis) oncogene homolog) tumor necrosis factor (TNF superfamily, member 2) tumor necrosis factor receptor superfamily, member 10d, decoy with truncated death domain 64 7 5 10 11 10.1 7 4 4 4 5 5 5 15 9 14 7.9 11 10.1 75 14 15 15 16 11.6 20 19 19 19 16 16 23 13 14 14 15.2 16 16 42 4 2 5 6 4 3 1 1 1 2 2 2 5 4 5 3.3 6 4.4 50 6 6 6 7 3.3 7 5 5 5 3 3 11 3 3 4 5.2 7 5.5 ANG-2 CCL5/RANTES CCL7/MCP-3 CCL15/MIP-1d CCL18/PARC CXCL8/IL-8 EGF G-CSF GDNF ICAM-1 IGFBP-6 IL-1a IL-3 IL-6 IL-11 M-CSF PDGF-BB TNF-a TRAIL R4 285 6352 6354 6359 6362 3576 1950 1440 2668 3383 3489 3552 3562 3569 3589 1435 5155 7124 8793 Dataset size PAM SMO Simple Logistic Logistic Multilayer Perceptron* Bayes Net Naı¨ve Bayes Naı¨ve Bayes Simple Naı¨ve Bayes Up IB1 Ibk Kstar LWL AdaBoost ClassViaRegression Decorate* MultiClass Classifier Random Committee* 139 21 20 25 27 21.7 27 23 23 23 21 21 28 28 23 28 23.1 27 26.1 PLoS ONE | www.plosone.org 5 September 2008 | Volume 3 | Issue 9 | e3111