|
| Status |
Public on Sep 09, 2011 |
| Title |
Saliva_HIVn_7 |
| Sample type |
protein |
| |
|
| Source name |
Saliva HIV negative
|
| Organism |
Homo sapiens |
| Characteristics |
sample: Saliva
protease inhibitor: Protease inhibitor cocktail without EDTA (ThermoFisher No.78415)
disease status: HIV uninfected
|
| Biomaterial provider |
Bellevue Virology Clinic, NY
|
| Treatment protocol |
Subjects were asked to rinse their mouth with distilled water after which saliva was induced by chewing on neutral gum base (courtesy of the Wrigley Company). Whole mouth stimulated saliva (WMSS) was collected in sterile disposable polyethylene 50 ml conical tubes kept on ice. Protease inhibitor cocktail without EDTA (ThermoFisher No.78415) was added at the concentration specified by the manufacturer, mixed gently and centrifuged at 1000 g for 25 min at 4°C, the supernatant aliquoted and stored at -80˚C.
|
| Growth protocol |
Not applicable
|
| Extracted molecule |
protein |
| Extraction protocol |
Not applicable
|
| Label |
Cy3
|
| Label protocol |
After incubating the array with the sample, the array was washed three times and incubated with biotin-conjugated antibody followed by treatment with Cy3-conjugated streptavidin.
|
| |
|
| Hybridization protocol |
None
|
| Scan protocol |
The air-dried slide was scanned (Axon GenePix 4000B, Genomics Core facility, NYU Langone Medical Center) and the resulting florescence signal analyzed (H40 Q-Analyzer v7.40.2 software (RayBiotech Inc.) to provide quantitative measure of target protein in the samples.
|
| Description |
Each custom array slide has 16 arrays, 6 of which are used to generate a standard curve by running a set of concentration standards (dilutions of protein cocktail of all analytes).
|
| Data processing |
The raw data (median florescence intensities without background) was imported in the H40 Q-Analyzer v7.40.2 software (RayBiotech Inc.). The software then generates positive control normalized mean florescence values for each array and linear as well as log regression standard curves for each protein based on the set of concentration standards run for each analyte on each slide. The final results are expressed in picograms per ml and account for dilution of the sample for the array.
|
| |
|
| Submission date |
Sep 09, 2010 |
| Last update date |
Sep 09, 2011 |
| Contact name |
Minal Dalvi |
| Organization name |
New York University
|
| Department |
Department of Basic Science
|
| Street address |
345 East 24th Street, Rm 917
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10010 |
| Country |
USA |
| |
|
| Platform ID |
GPL10899 |
| Series (2) |
| GSE24064 |
Salivary cytokine alterations in HIV infection part 2 |
| GSE24411 |
Salivary cytokine alterations in HIV infection |
|
