|
Status |
Public on Aug 26, 2014 |
Title |
Gammadelta_LoIncidence_Unstim_rep1 |
Sample type |
RNA |
|
|
Source name |
Gammadelta T cells, low incidence, unstimulated, replicate 1
|
Organism |
Homo sapiens |
Characteristics |
cells: Vdelta2+ gammadelta T cells treatment: Unstimulated incidence: low
|
Treatment protocol |
PBMCs were thawed, rested overnight, and co-incubated with P. falciparum-infected red blood cells for 6 hours, followed by FACS isolation of the Vdelta2+ subset of gammadelta T cells.
|
Growth protocol |
PBMCs were isolated from Ugandan children over Ficoll-Histopaque and cryopreserved in liquid nitrogen.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated with the RNAqueous Micro kit (Life Technologies). Isolated RNA was amplified using the Aminoallyl MessageAmp II kit (Life Technologies).
|
Label |
Cy3
|
Label protocol |
Aminoallyl-incorporated aRNA was conjugated to Cy3 dye (Life Technologies) for 1 h in sodium bicarbonate buffer and cleaned up on a spin column.
|
|
|
Hybridization protocol |
1.5 ug of Cy3-labeled aRNA was fragmented and hybridized to Agilent 8x60k mouse gene expression microarrays as per manufacturer instructions.
|
Scan protocol |
Arrays were scanned on an Agilent scanner at 3 um resolution as 20-bit TIFF images.
|
Description |
Gene expression in Vdelta2+ gammadelta T cells after incubation without stimulation
|
Data processing |
Features were extracted using Agilent Feature Extraction software. Non-background subtracted raw Cy3 intensities were taken as gene expression values and quantile normalized.
|
|
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Submission date |
Mar 12, 2014 |
Last update date |
Aug 26, 2014 |
Contact name |
Charlie Kim |
E-mail(s) |
cckim47@gmail.com
|
Organization name |
University of California, San Francisco
|
Department |
Medicine
|
Lab |
Kim
|
Street address |
1001 Potrero Ave
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94110 |
Country |
USA |
|
|
Platform ID |
GPL16699 |
Series (1) |
GSE55843 |
Loss and dysfunction of Vdelta2+ gammadelta-low T cells is associated with clinical tolerance to malaria |
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