|
| Status |
Public on Mar 01, 2014 |
| Title |
0695V060711_LPS_20121214_n191_01_10.RCC |
| Sample type |
RNA |
| |
|
| Source name |
0695V060711
|
| Organism |
Homo sapiens |
| Characteristics |
stimulation: LPS
hours: 2.5
plate: L1a
cartridge: n191
lane: 10
date of visit: 2011-06-07
time of visit: 7:58 AM
gender: M
age (years): 38
ethnicity: Caucasian
million pbmc: 32.287787
cd14 %: 98.2
cd16 %: 0.1
million dcs: 0.45
height (cm): 179.5
weight (kg): 96.8
systolic/diastolic: 100/66
bmi: 30.04321816
|
| Treatment protocol |
MoDCs were stimulated with 15 ng/mL LPS for 2.5 h or 5 h, influenza virus for 10 h, 100 U/mL IFNβ for 6.5 h, or left unstimulated.
|
| Growth protocol |
Monocyte-derived dendritic cells from each donor were cultured for 7 days in RPMI supplemented with 10% FBS, 100 ng/mL GM-CSF and 40 ng/mL IL-4.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Qiagen RNeasy columns.
|
| Label |
n/a
|
| Label protocol |
none
|
| |
|
| Hybridization protocol |
Lysates in Qiagen RLT buffer were hybridized for 12-24 hours with custom nCounter Gene Expression CodeSets.
|
| Scan protocol |
Nanostring nCounter system (Nanostring; Seattle, WA) was used to digitally count transcripts in a multiplex reaction.
|
| Data processing |
The raw data is first scaled by positive spike-ins, shifted by negative spike-ins, and a negative binomial is fit using DESeq based on the scale parameter estimated from the positive spike-ins
|
| |
|
| Submission date |
Dec 10, 2013 |
| Last update date |
Mar 01, 2014 |
| Contact name |
Nir Hacohen |
| E-mail(s) |
nhacohen@partners.org
|
| Organization name |
Broad Institute
|
| Street address |
7 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02143 |
| Country |
USA |
| |
|
| Platform ID |
GPL18032 |
| Series (2) |
| GSE53165 |
Expression data measured by Nanostring of monocyte-derived dendritic cells from healthy individuals stimulated with LPS, influenza, or IFN-beta, or left unstimulated |
| GSE57542 |
Expression data measured by Nanostring and microarray of monocyte-derived dendritic cells from healthy individuals stimulated with LPS, influenza, or IFN-beta, or left unstimulated |
|
