title: Gene expression patterns in ovarian carcinomas.
abstract: We used DNA microarrays to characterize the global gene expression patterns in surface epithelial cancers of the ovary. We identified groups of genes that distinguished the clear cell subtype from other ovarian carcinomas, grade I and II from grade III serous papillary carcinomas, and ovarian from breast carcinomas. Six clear cell carcinomas were distinguished from 36 other ovarian carcinomas (predominantly serous papillary) based on their gene expression patterns. The differences may yield insights into the worse prognosis and therapeutic resistance associated with clear cell carcinomas. A comparison of the gene expression patterns in the ovarian cancers to published data of gene expression in breast cancers revealed a large number of differentially expressed genes. We identified a group of 62 genes that correctly classified all 125 breast and ovarian cancer specimens. Among the best discriminators more highly expressed in the ovarian carcinomas were PAX8 (paired box gene 8), mesothelin, and ephrin-B1 (EFNB1). Although estrogen receptor was expressed in both the ovarian and breast cancers, genes that are coregulated with the estrogen receptor in breast cancers, including GATA-3, LIV-1, and X-box binding protein 1, did not show a similar pattern of coexpression in the ovarian cancers.
authors.affiliation: Stanford University School of Medicine, Stanford, California 94305-5151, USA.
authors.forename: Marci E
authors.initials: ME
authors.lastname: Schaner
authors.forename: Douglas T
authors.initials: DT
authors.lastname: Ross
authors.forename: Giuseppe
authors.initials: G
authors.lastname: Ciaravino
authors.forename: Therese
authors.initials: T
authors.lastname: Sorlie
authors.forename: Olga
authors.initials: O
authors.lastname: Troyanskaya
authors.forename: Maximilian
authors.initials: M
authors.lastname: Diehn
authors.forename: Yan C
authors.initials: YC
authors.lastname: Wang
authors.forename: George E
authors.initials: GE
authors.lastname: Duran
authors.forename: Thomas L
authors.initials: TL
authors.lastname: Sikic
authors.forename: Sandra
authors.initials: S
authors.lastname: Caldeira
authors.forename: Hanne
authors.initials: H
authors.lastname: Skomedal
authors.forename: I-Ping
authors.initials: IP
authors.lastname: Tu
authors.forename: Tina
authors.initials: T
authors.lastname: Hernandez-Boussard
authors.forename: Steven W
authors.initials: SW
authors.lastname: Johnson
authors.forename: Peter J
authors.initials: PJ
authors.lastname: O'Dwyer
authors.forename: Michael J
authors.initials: MJ
authors.lastname: Fero
authors.forename: Gunnar B
authors.initials: GB
authors.lastname: Kristensen
authors.forename: Anne-Lise
authors.initials: AL
authors.lastname: Borresen-Dale
authors.forename: Trevor
authors.initials: T
authors.lastname: Hastie
authors.forename: Robert
authors.initials: R
authors.lastname: Tibshirani
authors.forename: Matt
authors.initials: M
authors.lastname: van de Rijn
authors.forename: Nelson N
authors.initials: NN
authors.lastname: Teng
authors.forename: Teri A
authors.initials: TA
authors.lastname: Longacre
authors.forename: David
authors.initials: D
authors.lastname: Botstein
authors.forename: Patrick O
authors.initials: PO
authors.lastname: Brown
authors.forename: Branimir I
authors.initials: BI
authors.lastname: Sikic
mesh_terms: D000230:Adenocarcinoma / Q000235:genetics* / Q000378:metabolism; D018262:Adenocarcinoma, Clear Cell / Q000235:genetics* / Q000378:metabolism; D001943:Breast Neoplasms / Q000235:genetics* / Q000378:metabolism; D002291:Carcinoma, Papillary / Q000235:genetics* / Q000378:metabolism; D027682:Cation Transport Proteins / Q000235:genetics / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000235:genetics / Q000378:metabolism; D036387:Ephrin-B1 / Q000235:genetics / Q000378:metabolism; D005260:Female; D050990:GATA3 Transcription Factor; D058851:GPI-Linked Proteins; D006801:Humans; D007150:Immunohistochemistry; D008562:Membrane Glycoproteins / Q000235:genetics / Q000378:metabolism; D000090204:Mesothelin; D009363:Neoplasm Proteins / Q000235:genetics / Q000378:metabolism; D009687:Nuclear Proteins; D020411:Oligonucleotide Array Sequence Analysis; D010051:Ovarian Neoplasms / Q000235:genetics* / Q000378:metabolism; D000072636:PAX8 Transcription Factor; D051761:Paired Box Transcription Factors; D011960:Receptors, Estrogen / Q000235:genetics / Q000378:metabolism; D000071701:Regulatory Factor X Transcription Factors; D015534:Trans-Activators / Q000235:genetics / Q000378:metabolism; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D014407:Tumor Cells, Cultured
chemical_list: D027682:Cation Transport Proteins; D004268:DNA-Binding Proteins; D036387:Ephrin-B1; D050990:GATA3 Transcription Factor; C494749:GATA3 protein, human; D058851:GPI-Linked Proteins; D008562:Membrane Glycoproteins; D009363:Neoplasm Proteins; D009687:Nuclear Proteins; D000072636:PAX8 Transcription Factor; C083325:PAX8 protein, human; D051761:Paired Box Transcription Factors; D011960:Receptors, Estrogen; D000071701:Regulatory Factor X Transcription Factors; C418627:SLC39A6 protein, human; D015534:Trans-Activators; D014157:Transcription Factors; D000090204:Mesothelin