|
| Status |
Public on Nov 01, 2017 |
| Title |
2S012_F_AA_Y_3_139_genotype |
| Sample type |
genomic |
| |
|
| Source name |
Whole blood, mononuclear cell extract
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: blood
cell type: mononuclear
gender: F
self_reported_race: AA
ancestry: AA
obstructive_cad: Y
cad class: 3
cxcl5 rank: 139
bmi: 28.9667
diabetes: Y
hyperlipid: Y
hypertension: Y
|
| Treatment protocol |
none
|
| Growth protocol |
none
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Blood was drawn early in the day from fasted subjects to minimize signals associated with nutritional and diurnal cycle and processed within fifteen minutes. Plasma samples were obtained and RNA and DNA recovered from leukocytes using a modified one-step acid guanidinium thiocyanate-phenol-chloroform extraction (RNA-STAT60, Tel-Test, TX).
|
| Label |
biotin
|
| Label protocol |
DNA labeling, hybridization (Genome-Wide Human SNP Array 6.0, Affymetrix®), and data extraction were performed by the DNA Array Core Facility at The Scripps Research Institute (Jupiter, FL).
|
| |
|
| Hybridization protocol |
DNA labeling, hybridization (Genome-Wide Human SNP Array 6.0, Affymetrix®), and data extraction were performed by the DNA Array Core Facility at The Scripps Research Institute (Jupiter, FL).
|
| Scan protocol |
DNA labeling, hybridization (Genome-Wide Human SNP Array 6.0, Affymetrix®), and data extraction were performed by the DNA Array Core Facility at The Scripps Research Institute (Jupiter, FL).
|
| Data processing |
CHP files were created from CEL file intensities using the Affymetrix Genotyping Console using the BIRDSEED V2 algorithm with default settings.
CHP files were imported into Partek Genomics Suite v6.6. Genotype Call (SNP call): AA, AB, BB, or NC (No Call).
|
| |
|
| Submission date |
Nov 18, 2016 |
| Last update date |
Nov 01, 2017 |
| Contact name |
Jonathan C Schisler |
| E-mail(s) |
schisler@unc.edu
|
| Phone |
919-843-8708
|
| Organization name |
The University of North Carolina at Chapel Hill
|
| Department |
McAllister Heart Institute
|
| Lab |
Schisler Lab
|
| Street address |
MBRB, Rm 2340C
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7126 |
| Country |
USA |
| |
|
| Platform ID |
GPL6801 |
| Series (2) |
| GSE90073 |
Genotyping data from Phase 2 of the SAMARA study (Supporting a Multi-disciplinary Approach to Researching Atherosclerosis) |
| GSE90076 |
Clinical Evidence Supports a Protective Role for CXCL5 in Coronary Artery Disease Progression in the Elderly |
|
