|
| Status |
Public on Apr 18, 2017 |
| Title |
T3824 |
| Sample type |
SRA |
| |
|
| Source name |
resected gastric tissue
|
| Organism |
Homo sapiens |
| Characteristics |
noncancer- cancer: gastric cancer
cancer stage: 1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using TRIZOL reagent. The quantity and quality of purified samples were determined by dye-based fluorometer (Invitrogen Qbit) and capillary electrophoresis (Agilent TapeStation).
Illumina recommended protol for Truseq targeted RNA expression kit was followed.
Targeted RNA sequencing
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Sequencing reads were output from Miseq in fastq files.
The reads were trimmed to 50 bp if 150 cycles were completed using CLC Genomic Workbench v.8.0.
Trimmed reads were uploaded to Illumina cloud service BaseSpace and analyzed using RNA Expression app
The result was downloaded and merged into an Excel file for analysis.
Genome_build: hg19
Supplementary_files_format_and_content: Excel containing read number of preselected 157 targeted genes
|
| |
|
| Submission date |
Apr 18, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Chin Li |
| E-mail(s) |
biocl@ccu.edu.tw
|
| Phone |
0955-170-300
|
| Organization name |
National Chung Cheng University
|
| Department |
Life Science
|
| Street address |
168 University Road, Minhsiung
|
| City |
ChiaYi |
| ZIP/Postal code |
62102 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL15520 |
| Series (1) |
| GSE80389 |
Gastric cancer targeted RNA-seq |
|
| Relations |
| BioSample |
SAMN04867534 |
| SRA |
SRX1711498 |
