title: Genomics of the NF-κB signaling pathway: hypothesized role in ovarian cancer.
abstract: OBJECTIVE
  We sought to review evidence linking nuclear factor-kappa B (NF-κB) to ovarian cancer and to identify genetic variants involved in NF-κB signaling.
  
  
  METHODS
  PubMed was reviewed to inform on ovarian cancer biology and NF-κB signaling and to identify key genes. Public linkage disequilibrium (LD) data were analyzed to identify informative inherited variants (tagSNPs) using ldSelect.
  
  
  RESULTS
  We identified 319 key NF-κB genes including five NF-κB subunits, 167 activating genes, and 55 inhibiting genes. We found that the 1000 Genomes Project was the most informative LD source for most genes (92.8%), and we identified 13,027 LD bins (r (2) ≥ 0.9, minor allele frequency ≥ 0.05) and 1,018 putative-functional variants worthy of investigation. We also report that reliance on a commonly used genome-wide SNP array and genotype imputation with HapMap Phase II data provides data on only 74% of the common inherited NF-κB SNPs of interest.
  
  
  CONCLUSIONS
  Compelling evidence suggests that NF-κB plays a critical role in ovarian cancer, yet inherited variation in these genes has not been thoroughly assessed in relation to disease risk or outcome. We present a collection of variants in key genes and suggest creation of a custom genotyping array as an optimal approach.
authors.affiliation: Department of Health Sciences Research, Mayo Clinic College of Medicine, 200 First Street SW, Rochester, MN 55905, USA.
authors.forename: Kristin L
authors.initials: KL
authors.lastname: White
authors.forename: David N
authors.initials: DN
authors.lastname: Rider
authors.forename: Kimberly R
authors.initials: KR
authors.lastname: Kalli
authors.forename: Keith L
authors.initials: KL
authors.lastname: Knutson
authors.forename: Gail P
authors.initials: GP
authors.lastname: Jarvik
authors.forename: Ellen L
authors.initials: EL
authors.lastname: Goode
mesh_terms: D000818:Animals; D045744:Cell Line, Tumor; D005260:Female; D006801:Humans; D016328:NF-kappa B / Q000235:genetics* / Q000378:metabolism*; D010051:Ovarian Neoplasms / Q000235:genetics* / Q000378:metabolism*; D015398:Signal Transduction / Q000235:genetics
chemical_list: D016328:NF-kappa B