|
| Status |
Public on Mar 02, 2021 |
| Title |
HUVEC |
| Sample type |
SRA |
| |
|
| Source name |
Human Umbilical Vein
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Primary human endothelial cell
|
| Growth protocol |
Cells were grown in 10cm coated tissue culture dishes using media specific for each cell type.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA, greater than 100ng, from cultured cells was isolated in TRIzol L and purified using Qiagen RNeasy Mini Kit per manufacturer’s protocols.
RNA libraries were prepared and multiplexed using Illumina TruSeq RNA Library Preparation Kit v2 (non-stranded and poly-A selection).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Huv_EL_S14_L007
|
| Data processing |
RNA libraries were prepared and multiplexed using Illumina TruSeq RNA Library Preparation Kit v2 (non-stranded and poly-A selection)
cDNA was used as the input for high-throughput sequencing via Illumina’s HiSeq 2500 platform
Samples were analyzed via the Digital Expression Explorer 2 pipeline Docker container.
Resulting gene counts were processed in R package edgeR and a Log2 counts per million matrix was calculated after filtering and quality control.
Principal component analysis was subsequently performed. Gene set over-representation analysis with WebGestalt was run using the greatest and least 75 gene loading scores from the first three principal components.
Genome_build: GRCh38
Supplementary_files_format_and_content: gene counts tsv file
|
| |
|
| Submission date |
Mar 01, 2021 |
| Last update date |
Mar 02, 2021 |
| Contact name |
Tyler Lu |
| E-mail(s) |
[email protected]
|
| Phone |
9089383803
|
| Organization name |
Weill Cornell Medicine
|
| Street address |
1300 York Avenue
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE167959 |
Vascular fate in misidentified pluripotent-derived blood-brain-barrier endothelial cells rescued by transcriptional reprogramming |
|
| Relations |
| BioSample |
SAMN18095101 |
| SRA |
SRX10196117 |
