|
| Status |
Public on Mar 07, 2020 |
| Title |
anti-LTbR_20_Hours [RVS_008] |
| Sample type |
SRA |
| |
|
| Source name |
Normal human dermal fibroblasts undergoing LTbR stimulation for 20 Hours
|
| Organism |
Homo sapiens |
| Characteristics |
time point (hours): 20
agent: agonistic goat anti-human LTBR antibody
cell type: Normal human dermal fibroblasts
|
| Treatment protocol |
The following day cells were stimulated with 2 µg/ml agonistic goat anti-human LTBR antibody for 0, 2, 6, or 20 hours
|
| Growth protocol |
620,000 fibroblasts were plated on 10 cm plates in DMEM with 10% FBS at 37ºC.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Following stimulation for the indicated times, monolayers were washed with warm PBS, detached using TrypLE express. Cell pellets were split and processed for western blot analysis or lysed with QIAGEN RLT buffer. RNA was isolated using QIAGEN RNA easy extraction protocol
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Reads were aligned using RNA-Seq Alignment (BaseSpace Workflow) version 1.0.0
Gene counts were normalized using DESeq2
Genome_build: Homo sapiens (UCSC hg19)
Supplementary_files_format_and_content: Counts were rlog normalized using DESeq2
|
| |
|
| Submission date |
Mar 06, 2020 |
| Last update date |
Mar 08, 2020 |
| Contact name |
Richard Virgen-Slane |
| Organization name |
Sanford Burnham Prebys Medical Discovery Institute
|
| Department |
Infectious and Inflammatory Diseases Center
|
| Lab |
Ware
|
| Street address |
10901 North Torrey Pines Rd
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE146536 |
Stimulation of LTβR on human fibroblasts |
|
| Relations |
| BioSample |
SAMN14316873 |
| SRA |
SRX7862190 |
