Skip to main content

Table 3 Integrative sparse k-means clustering results a

From: Identification of Chiari Type I Malformation subtypes using whole genome expression profiles and cranial base morphometrics

Description Integrative clustering
  Dura-Cranial Blood-Cranial Blood-Dura-Cranial
Optimal k classes 3 2 2
 Class 1 (N) 19 27 27
 Class 2 (N) 11 13 13
 Class 3 (N) 10 NA NA
Optimal tuning parameter 0.52 0.24 0.35
N non-zero weighted features (%) b    
   Dura 6358 (53.9%) NA 3158 (26.8%)
   Blood NA 1120 (9.5%) 2372 (20.1%)
   Cranial 9 (37.5%) 2 (8.3%) 5 (20.8%)
Maximum weighted feature (weight)    
   Dura MUC4 (0.24) NA LGALS3 (0.34)
   Blood NA RABGAP1 (0.33) RABGAP1 (0.26)
   Cranial PFA_TOP (0.73) BASTOREF (0.99) BASTOREF (0.89)
Gap statistic c 0.128 ± 0.034 0.302 ± 0.073 0.266 ± 0.079
 95% Confidence interval 0.062-0.194 0.158-0.446 0.112-0.420
 P-value 7.41E-05 2.01E-05 3.59E-04
  1. Abbreviations: N number, MUC4 mucin 4 cell surface associated, RABGAP1 RAB GTPase activating protein 1, LGALS3 lectin galactoside-binding soluble 3, BASTOREF basion to reference line, PFA_TOP posterior fossa area above the reference line, NA not applicable.
  2. aDura: dura gene expression data, Blood: blood gene expression data, Cranial: PF trait data.
  3. b11804 gene expression probes and/or 24 posterior fossa traits (features) were used as input.
  4. cThe gap statistic ± standard error is presented. Gap statistics with an approximate p-value less than 0.05 are shown in bold.