|
| Status |
Public on Dec 25, 2021 |
| Title |
RM 4 D3 |
| Sample type |
RNA |
| |
|
| Source name |
WHOLE BLOOD
|
| Organism |
Macaca mulatta |
| Characteristics |
tissue: whole blood
group based on vaccine prime regimen: Administered adjuvanted HIV Env protein
days after vaccine prime: 3
|
| Treatment protocol |
The infant Rhesus macaques were immunized during the first week of life with either 15ug 1086C HIV Env protein with 10ug of 3M-052 adjuvant stable emulsiom or 15ug 1086C HIV Env protein with 10ug of 3M-052 adjuvant and MVA expressing 1086C Env
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA was extracted from whole blood using PAXgene blood RNA kit following the manufacturing protocol except for incubating the sample for 60min at 55℃ after the addition of BR2 and Proteinase K
|
| Label |
Followed the Nanostring Protocol
|
| Label protocol |
NanoString nCounter gene expression assay protocol was followed
|
| |
|
| Hybridization protocol |
NanoString nCounter gene expression assay protocol was followed
|
| Scan protocol |
Samples were scanned on the nCounter prep station following ncounter protocol
|
| Description |
The extracted RNA was analyzed with Nanostring Non Human Primate panel comprising 754 immune related genes
|
| Data processing |
Raw data files (RCC) were uploaded to the Nanostring software nSolver v3.022 with the advanced analysis module v2.0. nSolver employed multivariate linear regression models and raw p values were adjusted to Benjamin Yekutieli method to minimize false discovery rate. The Differentially expressed genes were defined as having log 2 fold change≥ 1.5 in expression and an adjusted p value ≤0.1.. Pathway score were generated using nSolver to define potential immune pathways
|
| |
|
| Submission date |
Dec 24, 2021 |
| Last update date |
Feb 07, 2022 |
| Contact name |
Kristina De Paris |
| E-mail(s) |
kristina_abel@med.unc.edu
|
| Phone |
9198439560
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Department of Microbiology and Immunology
|
| Lab |
De Paris Lab
|
| Street address |
Mary Ellen Jones Building , 116 manning Drive
|
| City |
Chapel Hill |
| State/province |
North Carolina |
| ZIP/Postal code |
27599 |
| Country |
USA |
| |
|
| Platform ID |
GPL29936 |
| Series (1) |
| GSE192584 |
Nanostring ncounter NHP Immunology V2 panel |
|
