|
| Status |
Public on Oct 01, 2019 |
| Title |
PDAC_202 |
| Sample type |
SRA |
| |
|
| Source name |
Blood extracellular vesicle
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: plasma
disease state: PDAC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Plasma EV RNAs were extracted by exoRNeasy Serum/Plasma kit.
RNA libraries were prepared for sequencing using SMARTer® Stranded Total RNA-Seq Kit - Pico Input Mammalian
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg38 whole genome using Hisat2
mRNA and lncRNA annotated in GencodeV25 were quantified using featureCounts
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include TPM values for each Sample.
|
| |
|
| Submission date |
Sep 06, 2019 |
| Last update date |
Oct 01, 2019 |
| Contact name |
Shenglin Huang |
| Organization name |
Fudan University
|
| Street address |
270 Dongan
|
| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
| |
|
| Platform ID |
GPL20795 |
| Series (1) |
| GSE133684 |
Blood extracellular vesicle long RNA sequencing of human blood from pancreatic ductal adenocarcinoma (PDAC), chronic pancreatitis (CP) and healthy individuals |
|
| Relations |
| BioSample |
SAMN12708872 |
| SRA |
SRX6813580 |
