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Series GSE53342 Query DataSets for GSE53342
Status Public on Dec 17, 2013
Title Transcriptomic analyses of Myc and xmrk induced zebrafish liver cancer
Organism Danio rerio
Experiment type Expression profiling by high throughput sequencing
Summary To compare the characteristics and mechanisms of Myc and xmrk induced zebrafish liver tumor, next generation sequencing-based SAGE analyses were used to examine the transcriptomes of tumor and control samples. The results indicated that relatively small overlaps of significantly deregulated genes and biological pathways among different zebrafish liver tumor models.Nevertheless, they all significantly correlate with advanced or very advanced human hepatocellular carcinoma (HCC). Molecular signature from each oncogene-induced zebrafish liver tumor correlated with only a small subset of human HCC samples, and they share conserved up-regulated pathways. A short list of commonly deregulated genes among different zebrafish liver tumors showed accordant deregulation in the majority of human HCCs, suggesting that they may serve as common diagnosis markers and therapeutic targets.Thus, these transgenic zebrafish models with well-defined oncogene-induced tumors are valuable tools for molecular classification of human HCCs and for understanding of molecular drivers in hepatocarcinogenesis in each human HCC subgroup.
 
Overall design Transcriptome profiling of Myc tumor sample (X-M+D+) and control samples (X-M-D-, X-M+D-, X-M-D+), xmrk tumor sample (X+M-D+) and control samples (X-M-D-, X+M-D-, X-M-D+), were generated by deep sequencing, using 3' RNA-SAGE on SOLiD system
 
Contributor(s) Zheng W, Li Z, Gong Z
Citation(s) 24633177
Submission date Dec 16, 2013
Last update date May 15, 2019
Contact name Weiling Zheng
E-mail(s) zhengweiling.echo@gmail.com
Organization name National University of Singapore
Street address Science Drive 4
City Singapore
ZIP/Postal code 117543
Country Singapore
 
Platforms (1)
GPL10658 AB SOLiD System 3.0 (Danio rerio)
Samples (6)
GSM1289478 X-M-D-
GSM1289479 X-M+D-
GSM1289480 X+M-D-
Relations
BioProject PRJNA231764
SRA SRP034513

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
GSE53342_RAW.tar 540.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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