|
| Status |
Public on May 23, 2016 |
| Title |
A549 was treated by GSK126 |
| Sample type |
SRA |
| |
|
| Source name |
A549, 50 μM GSK126
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A549
|
| Growth protocol |
A549 and MHCC97H cells were cultured in the complete DMEM medium and epigenetically manipulation (1 μM TSA, 50 μM GSK126 and 100μM S2101 respectively); HCT116 cells were maintained in complete RPMI 1640 medium and epigenetically manipulation (1 μM TSA, 50 μM GSK126 and 100μM S2101 respectively). We detected and analyzed the miss protein with transcriptome and proteome.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted using Trizol method.
The polyA+mRNA was selected by NEBNext® Poly(A) mRNAMagnetic Isolation Module. We used NEBNext® Ultra™ RNA Library Prep Kit for Illumina to construct sequencing libraries.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Adapter sequences were trimmed from the reads.
High quality reads were mapped to human mRNA reference sequence (RefSeq) for GRCh38/hg38 (downloaded from UCSC genome browser on May 21st, 2014) using FANSe2 mapping algorithm with the options –L80 –S10 –I0 –E5 –B1.
Genome_build: Human mRNA reference sequence (RefSeq) for GRCh38/hg38 (downloaded from UCSC genome browser on May 21st, 2014)
|
| |
|
| Submission date |
Jun 01, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Gong Zhang |
| E-mail(s) |
zhanggong@jnu.edu.cn
|
| Organization name |
Jinan University
|
| Department |
Institute of Life and Health Engineering
|
| Lab |
Translatomics Lab
|
| Street address |
Huang-Pu Avenue West 601
|
| City |
Guangzhou |
| ZIP/Postal code |
510632 |
| Country |
China |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE69420 |
Finding missing proteins from epigenetically manipulated human cells |
|
| Relations |
| BioSample |
SAMN03754094 |
| SRA |
SRX1044751 |
