Genomics

Dataset Information

34

Array CGH analysis of Oral Leukoplakia and Early Stage Oral Squamous Cell Carcinoma


ABSTRACT: Array Comparative Genomic Hybridization (CGH) profiling of Oral Leukoplakia (OPL) and early stage Oral Squamous Cell Carcinoma (OSCC) was performed to delineate candidate non-random chromosomal loci associated with disease progression and clinico-pathological parameters. The array CGH hybridizations were performed for 24 OPL and 38 OSCC samples with pooled gender matched controls. All tissue samples were collected after obtaining written informed consent. Overall design: Agilent two-color CGH experiment,Organism: Agilent-21764 Human Genome CGH Microarray 105A (G4412A), Labeling kit: Agilent Sure tag DNA labeling kit (Agilent Technologies, 5190-3400).

INSTRUMENT(S): 021764 Agilent Human Genotypic Designed CGH 105k Microarray [Probe name version]

SUBMITTER: Manoj Balkrishna Mahimkar  

PROVIDER: GSE85514 | GEO | 2017-04-26

SECONDARY ACCESSION(S): PRJNA338697

REPOSITORIES: GEO

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Publications

Chromosomal Alterations and Gene Expression Changes Associated with the Progression of Leukoplakia to Advanced Gingivobuccal Cancer.

Bhosale Priyanka G PG   Cristea Simona S   Ambatipudi Srikant S   Desai Rajiv S RS   Kumar Rajiv R   Patil Asawari A   Kane Shubhada S   Borges Anita M AM   Schäffer Alejandro A AA   Beerenwinkel Niko N   Mahimkar Manoj B MB  

Translational oncology 20170421 3


We present an integrative genome-wide analysis that can be used to predict the risk of progression from leukoplakia to oral squamous cell carcinoma (OSCC) arising in the gingivobuccal complex (GBC). We find that the genomic and transcriptomic profiles of leukoplakia resemble those observed in later stages of OSCC and that several changes are associated with this progression, including amplification of 8q24.3, deletion of 8p23.2, and dysregulation of DERL3, EIF5A2, ECT2, HOXC9, HOXC13, MAL, MFAP5  ...[more]

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