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Series GSE53624 Query DataSets for GSE53624
Status Public on Mar 07, 2014
Title LncRNA profile study reveals a three-lncRNA signature associated with the survival of esophageal squamous cell carcinoma patients (original)
Organism Homo sapiens
Experiment type Expression profiling by array
Non-coding RNA profiling by array
Summary Objective: Globally, esophageal cancer is among the most deadly cancer forms. Long non-coding RNAs (lncRNA) are frequently found to have important regulatory roles. We aim to assess the lncRNA expression profile of esophageal squamous cell carcinoma (ESCC) and identify prognosis related lncRNAs. Design: LncRNA expression profiles were studied by microarray in paired tumor and normal tissues from 119 ESCC patients, and validated by qRT-PCR. The 119 patients were subsequently divided randomly into training (n=60) and test (n=59) groups. A prognostic signature was developed from the training group using a random forest supervised classification algorithm and a nearest shrunken centroid algorithm, and validated in test group and further in an independent cohort (n=60). The independence of the signature in survival prediction was evaluated by Multivariable Cox regression analysis. Results: LncRNAs showed significantly altered expression in ESCC tissues. From the training group, we identified a three-lncRNA signature (including the lncRNAs ENST00000435885•1, XLOC_013014, and ENST00000547963•1) which classified the patients into two groups with significantly different overall survival (median survival 19•2 months vs. not reached, p<0•0001). The signature was applied to the test group (median survival 21•5 months vs. not reached, p=0•0030) and independent cohort (median survival 25•8 months vs. not reached, p=0•0187) and showed similar prognostic values in both. Multivariable Cox regression analysis showed that the signature was an independent prognostic factor for ESCC patients. Stratified analysis suggested that the signature was prognostic within clinical stages. Conclusions: Our results suggest that the three-lncRNA signature can serve as a novel biomarker for the prognosis of ESCC patients. Application of it allows for more accurate survival prediction.
 
Overall design The lncRNA expression profiles of cancer and adjacent normal tissues form 119 ESCC patients were studied by microarray and an lncRNA signature that can perdict the survival of ESCC patients was identified.
 
Contributor(s) Li J, Chen Z, Tian L
Citation(s) 24522499, 30736860, 29147607, 27172796, 32850794
Submission date Dec 23, 2013
Last update date Aug 31, 2020
Contact name Jiagen Li
E-mail(s) jiagen.li@hotmail.com
Organization name Cancer Institute, CAMS
Street address 17 Panjiayuannanli Chaoyang District
City Beijing
ZIP/Postal code 100021
Country China
 
Platforms (1)
GPL18109 Agilent-038314 CBC Homo sapiens lncRNA + mRNA microarray V2.0 (Feature Number version)
Samples (238)
GSM1297076 cancer tissue from patient 224
GSM1297077 normal tissue from patient 224
GSM1297078 cancer tissue from patient 225
This SubSeries is part of SuperSeries:
GSE53625 LncRNA profile study reveals a three-lncRNA signature associated with the survival of esophageal squamous cell carcinoma patients
Relations
BioProject PRJNA232520

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
GSE53624_RAW.tar 10.2 Gb (http)(custom) TAR (of TXT)
GSE53624_clinical_data_of_patients_orignial_set.xlsx.gz 20.2 Kb (ftp)(http) XLSX
GSE53624_lncRNA_relative_expression_value_original_set.xlsx.gz 8.3 Mb (ftp)(http) XLSX
Processed data included within Sample table
Processed data are available on Series record

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