Comprehensive genome characterization of solitary fibrous tumors using high-resolution array-based comparative genomic hybridization.
Solitary fibrous tumors (SFTs) are rare spindle cell tumors with limited therapeutic options. Their molecular basis is poorly known. No consistent cytogenetic abnormality has been reported. We used high-resolution whole-genome array-based comparative genomic hybridization (Agilent 244K oligonucleotide chips) to profile 47 samples, meningeal in >75% of cases. Few copy number aberrations (CNAs) were observed. Sixty-eight percent of samples did not show any gene CNA after exclusion of probes located in regions with referenced copy number variation (CNV). Only low-level CNAs were observed. The genomic profiles were very homogeneous among samples. No molecular class was revealed by clustering of DNA copy numbers. All cases displayed a "simplex" profile. No recurrent CNA was identified. Imbalances occurring in >20%, such as the gain of 8p11.23-11.22 region, contained known CNVs. The 13q14.11-13q31.1 region (lost in 4% of cases) was the largest altered region and contained the lowest percentage of genes with referenced CNVs. A total of 425 genes without CNV showed copy number transition in at least one sample, but only but only 1 in at least 10% of samples. The genomic profiles of meningeal and extra-meningeal cases did not show any differences.
Département d'Oncologie Moléculaire, Institut Paoli-Calmettes, CRCM, UMR1068 Inserm, Marseille, France. bertuccif@IPC.unicancer.fr
François
F
Bertucci
Corinne
C
Bouvier-Labit
Pascal
P
Finetti
José
J
Adélaïde
Philippe
P
Metellus
Karima
K
Mokhtari
Anne-Valérie
AV
Decouvelaere
Catherine
C
Miquel
Anne
A
Jouvet
Dominique
D
Figarella-Branger
Florence
F
Pedeutour
Max
M
Chaffanet
Daniel
D
Birnbaum
D000328:Adult; D000368:Aged; D000369:Aged, 80 and over; D002869:Chromosome Aberrations; D002882:Chromosomes, Human, Pair 13 / Q000235:genetics; D002898:Chromosomes, Human, Pair 8 / Q000235:genetics; D055028:Comparative Genomic Hybridization / Q000379:methods*; D056915:DNA Copy Number Variations; D005260:Female; D015894:Genome, Human / Q000235:genetics*; D055106:Genome-Wide Association Study / Q000379:methods; D006801:Humans; D008297:Male; D008577:Meningeal Neoplasms / Q000235:genetics; D008875:Middle Aged; D054364:Solitary Fibrous Tumors / Q000235:genetics*; D055815:Young Adult