title: Co-occurrence analysis for discovery of novel breast cancer pathology patterns.
abstract: To discover novel patterns in pathology co-occurrence, we have developed algorithms to analyze and visualize pathology co-occurrence. With access to a database of pathology reports, collected under a single protocol and reviewed by a single pathologist, we can conduct an analysis greater in its scope than previous studies looking at breast pathology co-occurrence. Because this data set is unique, specialized methods for pathology co-occurrence analysis and visualization are developed. Primary analysis is through a co-occurrence score based on the Jaccard coefficient. Density maps are used to visualize global co-occurrence. When our co-occurrence analysis is applied to a population stratified by menopausal status, we can successfully identify statistically significant differences in pathology co-occurrence patterns between premenopausal and postmenopausal women. Genomic and proteomic experiments are planned to discover biological mechanisms that may underpin differences seen in pathology patterns between populations.
authors.affiliation: Windber Research Institute, PA 15905, USA. s.maskery@wriwindber.org
authors.forename: Susan M
authors.initials: SM
authors.lastname: Maskery
authors.forename: Yonghong
authors.initials: Y
authors.lastname: Zhang
authors.forename: Rick M
authors.initials: RM
authors.lastname: Jordan
authors.forename: Hai
authors.initials: H
authors.lastname: Hu
authors.forename: Jeffrey A
authors.initials: JA
authors.lastname: Hooke
authors.forename: Craig D
authors.initials: CD
authors.lastname: Shriver
authors.forename: Michael N
authors.initials: MN
authors.lastname: Liebman
mesh_terms: D000465:Algorithms; D001185:Artificial Intelligence; D001706:Biopsy / Q000379:methods*; D001943:Breast Neoplasms / Q000145:classification / Q000473:pathology*; D016000:Cluster Analysis; D005260:Female; D006801:Humans; D007089:Image Enhancement / Q000379:methods*; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D016247:Information Storage and Retrieval / Q000379:methods*; D010363:Pattern Recognition, Automated / Q000379:methods*; D015203:Reproducibility of Results; D012189:Retrospective Studies; D012680:Sensitivity and Specificity; D014584:User-Computer Interface