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| Status |
Public on Mar 21, 2013 |
| Title |
Genome-wide screening of the expression of long noncoding RNA and coding RNA expression in esophageal sqaumous cell cancer |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
Non-coding RNA profiling by array
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| Summary |
In order to understand the role of long noncoding RNAs (lncRNAs) and their interaction with coding RNAs in esophageal sqaumous cell cancer (ESCC), we performed genome-wide screening of the expression of lncRNAs and coding RNAs from primary ESCC tissue and adjacent normal tissue using Agilent SurePrint G3 Human GE 8x60K Microarray. By comparing ESCC tissues and matched normal tissues, differentially expressed lncRNAs and coding RNAs were identified and confirmed with PCR and other independent studies. We further identified a subset of co-located and co-expressed lncRNAs and coding RNAs using bioinformatic tools and the analysis suggested that a subset of lncRNAs may influence nearby genes involved in the genesis of ESCC.
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| Overall design |
Four pairs of ESCC primary tumors and adjacent normal tissues were used for genome-scale microarray experiments, which included long noncoding RNAs and coding RNAs. Selected lncRNAs expressed in the experiment were validated on independent matched-pair samples with PCR method.
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| Contributor(s) |
Cao W, Wu W, Shi F |
| Citation(s) |
25297587 |
| |
| Submission date |
Mar 20, 2013 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Wei Wu |
| E-mail(s) |
wuwei@ucalgary.ca
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| Organization name |
1.Zhengzhou Central Hospital, Affiliated to Zhengzhou University, China; 2. University of Calgary
|
| Street address |
3330 Hospital Dr. NW
|
| City |
Calgary |
| ZIP/Postal code |
T2N 4N1 |
| Country |
Canada |
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| Platforms (1) |
| GPL13607 |
Agilent-028004 SurePrint G3 Human GE 8x60K Microarray (Feature Number version) |
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| Samples (8)
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| GSM1102826 |
Normal esophageal tissue from patient 1 with ESCC |
| GSM1102827 |
Primary ESCC tissue from patient 1 with ESCC |
| GSM1102828 |
Normal esophageal tissue from patient 2 with ESCC |
| GSM1102829 |
Primary ESCC tissue from patient 2 with ESCC |
| GSM1102830 |
Normal esophageal tissue from patient 3 with ESCC |
| GSM1102831 |
Primary ESCC tissue from patient 3 with ESCC |
| GSM1102832 |
Normal esophageal tissue from patient 4 with ESCC |
| GSM1102833 |
Primary ESCC tissue from patient 4 with ESCC |
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| Relations |
| BioProject |
PRJNA193519 |
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