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Series GSE32424 Query DataSets for GSE32424
Status Public on Dec 05, 2012
Title Identification of a Novel Angiogenesis and Tumor Suppressor Gene Rab25 in Esophageal Squamous Cell Carcinoma
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Twelve clinical samples from human esophageal squamous cell carcinoma (ESCC) (seven tumors and five non-tumors) were sequenced using Illumina high-throughput sequencing and the RNA-Seq profiling was investigated with 1730 genes significantly differentially expressed. The gene Rab25 was found to be down-regulated in tumors (p-value < 1E-20) and identified as a novel candidate tumor suppressor gene. The down-regulation of Rab25 was examined in a large cohort of ESCC and non-tumor cases by qPCR and immunohistochemistry analyses. Aberrant methylation in the promoter region of Rab25 was studied by demethylation treatment with 5-aza-dC and bisulfite genomic sequencing (BGS). In order to assess the effect of Rab25 on tumor growth and angiogenesis, in vitro and in vivo functional studies in ESCC cell lines using lentiviral-based overexpression or knockdown models were also performed.
Overall design 7 tumor and 5 normal samples
Contributor(s) Lok S, Guan X, Ma S, Bao JY, Tong CM
Citation(s) 22991305
Submission date Sep 27, 2011
Last update date May 15, 2019
Contact name Yunjuan Bao
Organization name University of Notre Dame
Street address 1234 Notre Dame Avenue
City Notre Dame
State/province Indiana
ZIP/Postal code 46556
Country USA
Platforms (1)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
Samples (12)
GSM802457 Tumor sample 1T
GSM802458 Tumor sample 2T
GSM802459 Tumor sample 3T
SRA SRP008496
BioProject PRJNA147913

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Supplementary file Size Download File type/resource
GSE32424_RAW.tar 1.4 Gb (http)(custom) TAR (of BAM)
GSE32424_RPKM.txt.gz 532.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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