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| Status |
Public on Jan 31, 2017 |
| Title |
RNA-Seq analysis facilitates quantitative analysis to identify DEGs in lung cancer cell lines regulated by S100A7A introduction in comparison with Cl1-0 control and S100A7A knockdown in comparison with CL1-5 control. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Methods: The cDNA libraries from 3 pooled samples of cultured cells for each group were sequenced to generate RNA profiles using Illumina Miseq platform
Results: The sequencing runs yielded a total of 95.01 M reads with an average length of 73-74 bp. The high-throughput sequencing performed for liver samples with different treatments showed similar numbers of yielded reads ranged from 5.57 to 5.74 M and the same average length. The Strand NGS software (version 2.1) was used using default parameters for pre-alignment and post-alignment quality control analysis and 100% of the raw reads remained in the dataset. Of these, 19.02 M reads (84%) were mapped into contigs of the rat genome (rn5) and identified 31457 transcripts in liver samples.
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| Overall design |
The mRNA profiles of CL1-0 lung adenocarcinoma cells with S100A7A overexpression and CL1-5 cells with S100A7A knockdown were generated with the respective controls by sequencing, using Illumina Miseq platform
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| Contributor(s) |
Chen Y, Chen K |
| Citation(s) |
28498804 |
| Submission date |
Sep 01, 2016 |
| Last update date |
Aug 25, 2019 |
| Contact name |
Kuang-Den Chen |
| E-mail(s) |
dennis8857@gmail.com
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| Organization name |
Kaohsiung Chang Gung Memorial Hospital
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| Department |
Translational Research Center in Biomedical Sicences
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| Lab |
Liver transplantation lab
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| Street address |
123, Ta-Pei Rd., Niao-Sung Dist.
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| City |
Kaohsiung |
| ZIP/Postal code |
83342 |
| Country |
Taiwan |
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| Platforms (1) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA341495 |
| SRA |
SRP083962 |
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