|
| Status |
Public on Oct 13, 2021 |
| Title |
HUVECs, NET4h_1 |
| Sample type |
SRA |
| |
|
| Source name |
normal human umbilic endothelial cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HUVEC
cell type: normal human umbilic endothelial cells
treatment: NET4h
sample_name: Sample_793-HS-13
|
| Treatment protocol |
Triplicates treated with vehicle, NETs, or NETs + defibrotide
|
| Growth protocol |
Human umbilical vein endothelial cells (HUVECs) purchased from ATCC were cultured in EBM supplemented with EGM-2MV singleQuots (Lonza) without hydrocortisone in 0.2% gelatin-coated tissue culture plates.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA from cells was isolated using RNeasy Plus Mini Kit (74134, Qiagen) according to manufacturer’s instructions. Sequencing was performed by the UM Advanced Genomics Core, with libraries constructed and subsequently subjected to 150 paired-end cycles on the NovaSeq-6000 platform (Illumina).
NEB RNA Ultra II, 151 PE
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
gene_expected_count.txt
|
| Data processing |
Alignment with STAR (v2.6.1b)
Assigned count estimates to genes with RSEM (v1.3.1)
Genome_build: GRCh38
Supplementary_files_format_and_content: raw counts
|
| |
|
| Submission date |
Jul 09, 2021 |
| Last update date |
Oct 13, 2021 |
| Contact name |
Bioinformatics Core |
| E-mail(s) |
bioinformatics@umich.edu
|
| Organization name |
University of Michigan
|
| Street address |
BRCF Bioinformatics Core, 2800 Plymouth Rd
|
| City |
Ann Arbor |
| State/province |
Mi |
| ZIP/Postal code |
48109-2800 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE179828 |
RNA Sequencing reveals transcriptome profiling of HUVECs in response to NETs ± defibrotide |
|
| Relations |
| BioSample |
SAMN20151334 |
| SRA |
SRX11399734 |
