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. 2008 Jul 17;1:3. doi: 10.1186/1756-0381-1-3

Table 2.

Summary of NN Studies Reviewed

Publication Input Output Hidden Layer
Type Coding Type Coding Number Layers Number Nodes
Bhat et al. 1999 Binary 0 = absence of allele Binary 1/0/0 = unaffected 1 15
1 = presence of allele 0/1/0 = mildly affected
0/0/1 = severely affected
Bush et al 2005 Discrete -1, -1 = 1/1 genotype Binary 0 = unaffected GP evolved
0, + 2 = 1/2 genotype 1 = affected
+1, -1 = 2/2 genotype
Costello et al. 2003 Dicrete Varied Binary 0 = unaffected Multiple variations
1 = affected
Curtis et al. 2001 Discrete 0 = AA genotype Binary 0 = unaffected 2 3
1 = AB genotype 1 = affected
2 = BB genotype
Curtis 2007 Discrete 0 = AA genotype Binary 0 = unaffected 2 3
1 = AB genotype 1 = affected
2 = BB genotype
Giachino et al 2007 Discrete and Continuous Categorical values of genotypes and clinical features Binary 0 = unaffected 1 unknown
1 = affected
Li et al. 1999 Discrete IBD sharing Binary 0/1 = concordant or not Multiple variations
+1= shared allele 0/1 = affected or unaffected
-1 = unshared allele
0 = uninformative
Lin et al 2006 Discrete Categories of genotype combinations Binary 0 = non-response Multiple variations
1 = response
Lucek and Ott 1997 Binary 0 = absence of allele Binary 4 nodes for each trait (20 total nodes) 1 70
1 = presence of allele 0 = quantitative trait off
1 = quantitative trait on
Lucek et al. 1998 Discrete IBD sharing Binary +1,+1 = target output 1 √220
+1= shared allele 0, +1 = noise
-1 = unshared allele
0 = uninformative
Marinov and Weeks 2001 Discrete IBD sharing Binary +1,+1 = target output 1 √220
+1= shared allele 0, +1 = noise
-1 = unshared allele
0 = uninformative
Matchenko-Shimko and Dube 2006 Discrete Three combinations of possible allele combinations, transformed to a 0–1 range Binary 0 = control Multiple variations
1 = case
Motsinger et al (2006a) Discrete -1, -1 = 1/1 genotype Binary 0 = unaffected GP Evolved
0, + 2 = 1/2 genotype 1 = affected
+1, -1 = 2/2 genotype
Motsinger et al (2006b) Discrete -1, -1 = 1/1 genotype Binary 0 = unaffected GE Evolved
0, + 2 = 1/2 genotype 1 = affected
+1, -1 = 2/2 genotype
North et al 2003 Discrete 0 = AA genotype Binary 0 = unaffected Multiple Variations
1 = AB genotype 1 = affected
2 = BB genotype
Ott 2001 Discrete -1, -1 = 1/1 genotype Binary 0 = unaffected NA
0, +2 = 1/2 genotype 1 = affected
+1, -1 = 2/2 genotype
Pankratz et al. 2001 Discrete IBD sharing Binary 1/1 = affected/affected 1 4
+1 = shared allele 0/1 = affected/unaffected
-1 = unshared allele
0 = uninformative
Penco et al 2005 Discrete Categories of allele combinations at each genotype Binary 0 = unaffected Multiple variations, including and evolutionary process
1 = affected
Pociot et al. 2004 Discrete Number of categories per sliding window Binary 0 = unaffected Multiple variations
1 = affected
Ritchie et al. 2003 Discrete -1, -1 = 1/1 genotype Binary 0 = unaffected GP evolved
0, + 2 = 1/2 genotype 1 = affected
+1, -1 = 2/2 genotype
Saccone et al. 1999 Discrete IBD sharing Binary 1/1 = affected/affected 18 variations
+1= shared allele 0/1 = affected/unaffected
-1 = unshared allele
0 = uninformative
Serretti and Smeraldi 2004 Discrete SERPR*l/l = 1 Binary 0 = nonresponse 1 7
SERPR*l/s = 2 1 = response
SERPR*s/s = 2
TPH*C/C = 1
TPH*C/A = 2
TPH*A/A = 2
Shoemaker et al. 2001 Varied Varied Binary 0 = unaffected 1 unknown
1 = affected
Tomita et al 2004 Discrete Homozygous for major allele = (0.1, 0.1) Binary 0.9 = case Multiple variations
Heterozygous = (0.1, 0.9) 0.1 = control
Homozygous for minor allele = (0.9, 0.9)
Zandi et al. 2001 Contin. Pedigree-specific NPL scores Binary 1,1 = case pedigree 15 variations
1,0 = control pedigree