|
| Status |
Public on Jun 30, 2016 |
| Title |
NPC-744T |
| Sample type |
SRA |
| |
|
| Source name |
Nasopharyngeal
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Tumor
who class: III
age: 58
gender: male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA were extracted from the snap-frozen NPC or control nasopharyngeal tissues. 25 ug total RNA prepared for sequencing for each sample
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
744T
|
| Data processing |
Illumina HiSeq Control Software used for basecalling.
Sequenced reads were trimmed for adaptor sequence by illumina HiSeq Analysis Software
Raw fastq data was mapped to human genome(Human.B37) and transcriptome(Gene model:RefGene) by ArrayStudiuo V7.0
Sequenced Fragments Per Kilobase of exon per Million fragments mapped to human genome (FPKM) were calculated using ArrayStudiuo V7.0. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: Human NCBI genome build 37 and Gene model:RefGene
Supplementary_files_format_and_content: tab-delimited excel files include FPKM values for each Sample ...
|
| |
|
| Submission date |
May 12, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Hua Dong |
| E-mail(s) |
hdong.az@gmail.com
|
| Organization name |
astrazeneca
|
| Street address |
199 Liangjing Rd.
|
| City |
Shanghai |
| ZIP/Postal code |
200013 |
| Country |
China |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE68799 |
RNASeq identified human transcriptome alterations in Chinese Nasopharyngeal Carcinoma |
|
| Relations |
| SRA |
SRX1023981 |
| BioSample |
SAMN03656429 |
