Gene expression patterns in ovarian carcinomas.
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.
Schaner
Marci E
ME
Stanford University School of Medicine, Stanford, California 94305-5151, USA.
Ross
Douglas T
DT
Ciaravino
Giuseppe
G
Sorlie
Therese
T
Troyanskaya
Olga
O
Diehn
Maximilian
M
Wang
Yan C
YC
Duran
George E
GE
Sikic
Thomas L
TL
Caldeira
Sandra
S
Skomedal
Hanne
H
Tu
I-Ping
IP
Hernandez-Boussard
Tina
T
Johnson
Steven W
SW
O'Dwyer
Peter J
PJ
Fero
Michael J
MJ
Kristensen
Gunnar B
GB
Borresen-Dale
Anne-Lise
AL
Hastie
Trevor
T
Tibshirani
Robert
R
van de Rijn
Matt
M
Teng
Nelson N
NN
Longacre
Teri A
TA
Botstein
David
D
Brown
Patrick O
PO
Sikic
Branimir I
BI
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
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