title: High-resolution global genomic survey of 178 gliomas reveals novel regions of copy number alteration and allelic imbalances.
abstract: Primary brain tumors are the fourth leading cause of cancer mortality in adults under the age of 54 years and the leading cause of cancer mortality in children in the United States. Therapy for the most common type of primary brain tumors, gliomas, remains suboptimal. The development of new and more effective treatments will likely require a better understanding of the biology of these tumors. Here, we show that use of the high-density 100K single-nucleotide polymorphism arrays in a large number of primary tumor samples allows for a much higher resolution survey of the glioma genome than has been previously reported in any tumor type. We not only confirmed alterations in genomic areas previously reported to be affected in gliomas, but we also refined the location of those sites and uncovered multiple, previously unknown regions that are affected by copy number alterations (amplifications, homozygous and heterozygous deletions) as well as allelic imbalances (loss of heterozygosity/gene conversions). The wealth of genomic data produced may allow for the development of a more rational molecular classification of gliomas and serve as an important starting point in the search for new molecular therapeutic targets.
authors.affiliation: Neuro-Oncology Branch, National Cancer Institute, Bethesda, MD 20892-4254, USA.
authors.forename: Yuri
authors.initials: Y
authors.lastname: Kotliarov
authors.forename: Mary Ellen
authors.initials: ME
authors.lastname: Steed
authors.forename: Neil
authors.initials: N
authors.lastname: Christopher
authors.forename: Jennifer
authors.initials: J
authors.lastname: Walling
authors.forename: Qin
authors.initials: Q
authors.lastname: Su
authors.forename: Angela
authors.initials: A
authors.lastname: Center
authors.forename: John
authors.initials: J
authors.lastname: Heiss
authors.forename: Mark
authors.initials: M
authors.lastname: Rosenblum
authors.forename: Tom
authors.initials: T
authors.lastname: Mikkelsen
authors.forename: Jean C
authors.initials: JC
authors.lastname: Zenklusen
authors.forename: Howard A
authors.initials: HA
authors.lastname: Fine
mesh_terms: D000483:Alleles; D001932:Brain Neoplasms / Q000235:genetics*; D004273:DNA, Neoplasm / Q000235:genetics; D066246:ErbB Receptors / Q000032:analysis; D005784:Gene Amplification; D018628:Gene Dosage; D015698:Genomic Library; D005910:Glioma / Q000235:genetics*; D006801:Humans; D019656:Loss of Heterozygosity; D020411:Oligonucleotide Array Sequence Analysis; D016133:Polymerase Chain Reaction; D012333:RNA, Messenger / Q000096:biosynthesis; D012334:RNA, Neoplasm / Q000096:biosynthesis; D014481:United States
chemical_list: D004273:DNA, Neoplasm; D012333:RNA, Messenger; D012334:RNA, Neoplasm; C512478:EGFR protein, human; D066246:ErbB Receptors