|
| Status |
Public on Oct 30, 2018 |
| Title |
149-1 |
| Sample type |
SRA |
| |
|
| Source name |
pancreatic cancer sample
|
| Organism |
Tupaia chinensis |
| Characteristics |
tissue: pancreatic cancer
organ: pancreas
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction protocol not provided.
RNA-seq libraries were constructed using the mRNA-Seq Prep kit and were sequenced on the Illumina HiSeq 4000 platform in paired-end form with 150 bp
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.8
Bowtie software was used for sequence alignment
Data were filtered using GSQCToolkitv2.3.3 with parameters –pe -cutOffReadLen4HQ 70 –cutOffQualScore 20 N 5.
Tophat2.10 software was used for sequence alignment
Cufflinks2.2.1 was used to calculate gene expression values
The upper quartile normalization method was used to calculate gene expression values for each sample
Genome_build: ref_TupChi_1.0 (http://www.treeshrewdb.org/)
Supplementary_files_format_and_content: Interpretable processed data were not provided for this study.
|
| |
|
| Submission date |
Feb 16, 2018 |
| Last update date |
Oct 30, 2018 |
| Contact name |
Junjun Hao |
| E-mail(s) |
haojunjun@mail.kiz.ac.cn
|
| Organization name |
Kunming Institute of Zoology
|
| Street address |
32 Jiaochang Donglu Kunming
|
| City |
Kunming |
| ZIP/Postal code |
650223 |
| Country |
China |
| |
|
| Platform ID |
GPL24618 |
| Series (1) |
| GSE106343 |
Identification of Driver Mutations for Induction of Pancreatic Cancer from Adult Tree Shrew (Tupaia belangeri chinensis) Acinar Cells |
|
| Relations |
| BioSample |
SAMN08558695 |
| SRA |
SRX3716294 |
