title: Coexpression Pattern Analysis of NPM1-Associated Genes in Chronic Myelogenous Leukemia.
abstract: BACKGROUND
  Nucleophosmin 1 (NPM1) plays an important role in ribosomal synthesis and malignancies, but NPM1 mutations occur rarely in the blast-crisis and chronic-phase chronic myelogenous leukemia (CML) patients. The NPM1-associated gene set (GCM_NPM1), in total 116 genes including NPM1, was chosen as the candidate gene set for the coexpression analysis. We wonder if NPM1-associated genes can affect the ribosomal synthesis and translation process in CML.
  
  
  RESULTS
  We presented a distribution-based approach for gene pair classification by identifying a disease-specific cutoff point that classified the coexpressed gene pairs into strong and weak coexpression structures. The differences in the coexpression patterns between the normal and the CML groups were reflected from the overall structure by performing two-sample Kolmogorov-Smirnov test. Our developed method effectively identified the coexpression pattern differences from the overall structure: P  value = 1.71 × 10(-22) < 0.05 for the maximum deviation D = 0.109. Moreover, we found that genes involved in the ribosomal synthesis and translation process tended to be coexpressed in the CML group.
  
  
  CONCLUSIONS
  Our developed method can identify the coexpression difference between two different groups. Dysregulation of ribosomal synthesis and translation process may be related to the CML disease. Our significant findings may provide useful information for the novel CML mechanism exploration and cancer treatment.
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: Fengfeng
authors.identifier: 0000-0003-4959-4527
authors.initials: F
authors.lastname: Wang
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: Lawrence W C
authors.identifier: 0000-0001-6451-2273
authors.initials: LW
authors.lastname: Chan
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: Nancy B Y
authors.identifier: 0000-0002-7647-4304
authors.initials: NB
authors.lastname: Tsui
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: S C Cesar
authors.initials: SC
authors.lastname: Wong
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: Parco M
authors.initials: PM
authors.lastname: Siu
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: S P
authors.identifier: 0000-0002-2170-8185
authors.initials: SP
authors.lastname: Yip
authors.affiliation: Department of Health Technology and Informatics, Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong.
authors.forename: Benjamin Y M
authors.initials: BY
authors.lastname: Yung
mesh_terms: D001752:Blast Crisis / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods*; D015973:Gene Expression Regulation, Leukemic; D056726:Genetic Association Studies; D006801:Humans; D015464:Leukemia, Myelogenous, Chronic, BCR-ABL Positive / Q000235:genetics* / Q000378:metabolism / Q000473:pathology; D009154:Mutation; D009363:Neoplasm Proteins / Q000096:biosynthesis / Q000235:genetics; D009687:Nuclear Proteins / Q000096:biosynthesis* / Q000235:genetics; D000090243:Nucleophosmin; D012270:Ribosomes / Q000235:genetics / Q000378:metabolism*
chemical_list: C000716967:NPM1 protein, human; D009363:Neoplasm Proteins; D009687:Nuclear Proteins; D000090243:Nucleophosmin