|
| Status |
Public on Dec 19, 2017 |
| Title |
LEC vector control replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
lymphatic endothelial cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: lymphatic endothelial cells (LEC)
genotype/variation: vector control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were isolated using TRIzol® reagent (Sigma).
RNA-seq libraries were prepared using the Illumina TruSeq Stranded mRNA Library Prep Kit following manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
PolyA RNA
|
| Data processing |
FASTQ files were generated using bcl2fastq v2.17
Reads were aligned to the hg19 genome using Tophat v2.0.14 with parameters '--max-mismatches 2 --max-multihits 10 --library-type fr-firststrand'
Gene-level counts were obtained using HTSeq v0.6.1p1 with parameters '-s reverse -m union'.
Genome_build: hg19
Supplementary_files_format_and_content: counts
|
| |
|
| Submission date |
Aug 01, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Fan Li |
| Organization name |
University of California Los Angeles
|
| Department |
Pediatrics
|
| Street address |
675 Charles E Young Drive South
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90024 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE102132 |
KSHV vIRF3 promotes angiogenesis of lymphatic endothelial cells (LECs) |
|
| Relations |
| BioSample |
SAMN07432712 |
| SRA |
SRX3053509 |
