title: Identification of collaboration patterns of dysfunctional pathways in breast cancer.
abstract: Breast cancer (BC) is the most common malignancy among women. We aimed to illuminate the molecular dysfunctional mechanisms of BC progression. The mRNA expression profile of BC GSE15852 was downloaded from Gene Expression Omnibus database, including 43 normal samples and 43 cancer samples. Differentially expressed genes (DEGs) in BC were screened using the t-test by Benjamin and Hochberg method. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways of the selected DEGs were enriched using Hypergeomeric distribution model. In addition, functional similarity network among the enriched pathways was constructed to further analyze the collaboration of these pathways. We found 848 down-regulated DEGs were associated with 16 significant dysfunctional pathways, including PPAR signaling fatty acid metabolism, and 1584 up-regulated DEGs were related to 6 significant dysfunctional pathways, like cell cycle, protein export, and antigen processing and presentation in BC samples. Crosstalk network analysis of pathways indicated that pyruvate metabolism, propanoate metabolism, and glycolysis gluconeogenesis were the pathways with closest connections with other pathways in BC. In addition, other antigen processing and presentation, including 19 DEGs; PPAR signaling pathway, including 18 DEGs; and pyruvate metabolism pathway, including 13 DEGs were further analyzed. Our results suggested that dysfunctional of significant pathways can greatly affect the progression of BC. Several significant disorder pathways were enriched in our comprehensive study. They may provide guidelines to explore the dysfunctional mechanism of BC progression.
authors.affiliation: The Department of Gastrointestinal Surgery, The First Hospital Affiliated to General Hospital of PLA Beijing 100048, China.
authors.forename: Xinyong
authors.initials: X
authors.lastname: Zhu
authors.affiliation: Department of General Surgery, Capital Medical University School of Rehabilitation, Beijing Bo'ai Hospital, China Rehabilitation Research Center Beijing 100068, China.
authors.forename: Lianyuan
authors.initials: L
authors.lastname: Tao
authors.affiliation: The Department of Gastrointestinal Surgery, The First Hospital Affiliated to General Hospital of PLA Beijing 100048, China.
authors.forename: Jing
authors.initials: J
authors.lastname: Yao
authors.affiliation: The Department of Gastrointestinal Surgery, The First Hospital Affiliated to General Hospital of PLA Beijing 100048, China.
authors.forename: Pengjun
authors.initials: P
authors.lastname: Sun
authors.affiliation: The Department of Gastrointestinal Surgery, The First Hospital Affiliated to General Hospital of PLA Beijing 100048, China.
authors.forename: Lijuan
authors.initials: L
authors.lastname: Pei
authors.affiliation: The Department of Gastrointestinal Surgery, The First Hospital Affiliated to General Hospital of PLA Beijing 100048, China.
authors.forename: Jiye
authors.initials: J
authors.lastname: Li
authors.affiliation: Department of General Surgery, Capital Medical University School of Rehabilitation, Beijing Bo'ai Hospital, China Rehabilitation Research Center Beijing 100068, China.
authors.forename: Zhihua
authors.initials: Z
authors.lastname: Long
authors.affiliation: Department of General Surgery, Capital Medical University School of Rehabilitation, Beijing Bo'ai Hospital, China Rehabilitation Research Center Beijing 100068, China.
authors.forename: Ye
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Department of General Surgery, Capital Medical University School of Rehabilitation, Beijing Bo'ai Hospital, China Rehabilitation Research Center Beijing 100068, China.
authors.forename: Fengliang
authors.initials: F
authors.lastname: Zhang
mesh_terms: D001943:Breast Neoplasms / Q000235:genetics* / Q000378:metabolism; D005260:Female; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic / Q000235:genetics*; D053263:Gene Regulatory Networks / Q000235:genetics*; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D012333:RNA, Messenger / Q000032:analysis; D015398:Signal Transduction / Q000502:physiology*; D059467:Transcriptome
chemical_list: D012333:RNA, Messenger
keywords: Breast cancer; differentially expressed genes; dysfunctional; pathway crosstalk