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Series GSE60067 Query DataSets for GSE60067
Status Public on Dec 31, 2014
Title Cervical neoplasia genomes
Organism Homo sapiens
Experiment type Genome variation profiling by genome tiling array
Summary Cervical intraepithelial neoplasia (CIN), also known as cervical dysplasia, is premalignant lesions of the cervical squamous cell carcinoma (CSCC) that shows abnormal growth of squamous cells in the cervix epithelium. Given the evidence suggesting that differences may exist between CIN and CSCC, we hypothesize that progression may be mediated by subpopulation selection or by acquisition of additional alterations, including gene mutations or chromosomal alterations.
In this study, we analyzed cervical CIN, microinvasive carcinoma (MIC) and CSCC by whole-exome sequencing and array-comparative genomic hybridization (array-CGH) and found that CIN genomes harbored fewer mutations (especially fewer driver mutations) and copy number alterations (CNAs), suggesting that additional genomic alterations might burst onto the CIN genome at the final stage of CIN progression to CSCC or an early stage of CSCC.
Overall design To find genomic differences between CIN and CSCC, a total of eight cervical neoplasia genomes (three CINs, one MIC, and four CSCC genomes) were analyzed in this study. The hospital pathology department confirmed pathologic features of the cervical neoplasias. All of the picked areas from tumor and normal areas were frozen, cut, and stained with hematoxylin & eosin (H&E). Two pathologists selected cases with rich tumor cell population (at least 70%), which were subsequently used in the study. Copy number profiling was performed using Agilent 180K platform according to the manufacturer's protocol.
Contributor(s) Jung S, Chung Y
Citation(s) 25738363
Submission date Aug 04, 2014
Last update date Jul 31, 2019
Contact name SeungHyun Jung
Phone 82-2-2258-7509
Organization name Catholic University of Korea
Department Department of Biochemistry
Street address catholic university, medical college, banpo-dong
City seoul
State/province seoul
ZIP/Postal code 06591
Country South Korea
Platforms (1)
GPL10123 Agilent-022060 SurePrint G3 Human CGH Microarray 4x180K (Feature Number version)
Samples (8)
GSM1464540 CIN-5
GSM1464541 CIN-6
GSM1464542 CIN-9
BioProject PRJNA257407

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE60067_RAW.tar 150.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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