|
| Status |
Public on Jan 22, 2014 |
| Title |
Subject C129 [mRNA] |
| Sample type |
RNA |
| |
|
| Source name |
Cord blood from newborn, subject C129
|
| Organism |
Homo sapiens |
| Characteristics |
mother's age (years): 19
smoking status: Nonsmoker
gestational age (weeks): 41
newborn weight (grams): 2720
newborn sex: male
tissue: Cord blood from newborn
total urinary arsenic (specific gravity adjusted) (ug/l): 36.71
arsenic in drinking water (ug/l): 17.87
|
| Treatment protocol |
n/a
|
| Growth protocol |
n/a
|
| Extracted molecule |
total RNA |
| Extraction protocol |
This cohort includes residents from Gómez Palacio, located in the state of Durango in the Lagunera region of Northern Mexico. A total of 200 pregnant women residing in Gómez Palacio, State of Durango, Mexico, were recruited at the General Hospital of Gómez Palacio to participate in the BEAR prospective pregnancy cohort. The present study focuses on mRNA expression profiles and utilizes 38 samples obtained from mother-newborn pairs selected from the larger cohort (n=200). Cord blood samples were collected from the newborns immediately after infant delivery. Blood samples were collected using PreAnalytix PaxGene RNA tubes and extracted using the PAXgene RNA Kit, per standard protocol (Qiagen, Valencia, CA). Isolated RNA used for microarray analysis were amplified and labeled using the NuGEN Ovation Pico WTA System V2 and Encore Biotin Module, respectively (NuGEN, San Carlos, CA). RNA isolated from 38 cord blood samples were labeled and hybridized to the Human Gene 2.0 ST Array
|
| Label |
biotin
|
| Label protocol |
Labeled cRNA were prepared with biotin according to the standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNA was hybridized on Affymetrix Human Gene 2.0 ST Array
|
| Scan protocol |
Microarrays were scanned using Affymetrix Microarray Scanner
|
| Description |
normalized mRNA expression data from cord blood (log2 transformed)
|
| Data processing |
Data were normalized by robust multi-chip averaging using Partek® Genomics SuiteTM software (version 6.5)
|
| |
|
| Submission date |
Jun 27, 2013 |
| Last update date |
Jan 22, 2014 |
| Contact name |
Rebecca Catherine Fry |
| E-mail(s) |
rfry@unc.edu
|
| Organization name |
UNC-Chapel Hill
|
| Department |
Environmental Sciences and Engineering
|
| Street address |
1213 MHRC
|
| City |
Chapel Hill |
| ZIP/Postal code |
27599 |
| Country |
USA |
| |
|
| Platform ID |
GPL16686 |
| Series (2) |
| GSE48354 |
Prenatal arsenic exposure and the epigenome: altered gene expression profiles in newborn cord blood |
| GSE48355 |
Prenatal arsenic exposure and the epigenome |
|
