|
| Status |
Public on Jun 09, 2014 |
| Title |
Placenta_1.1_SF_M60_Piece_2 |
| Sample type |
RNA |
| |
|
| Source name |
Placenta_1.1_SF_M60_piece
|
| Organism |
Homo sapiens |
| Characteristics |
tissue id: Placenta 1.1
pregnancy stage: First trimester
tissue collection method: Snap Frozen
time after removal from the uterus: 60 minutes
tissue type: Piece
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tissue was lysed in mirVana (Ambion) lysis buffer, using a Mini-Beadbeater-16 (Biospec), with agitation for one minute in the presence of 1 mm zirconia beads. Samples were then centrifuged at maximum speed for one minute and the lysed solution was transferred to a fresh microfuge tube. The remainder of the extraction was per the manufacturer’s protocol for the mirVana kit (Ambion). After extraction, RNA was quantified using the Quant-iT Kit (Life Technologies). RNA quality was assessed using the Agilent 2100 Bioanalyzer (Agilent).
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
SAMPLE 5
|
| Data processing |
The data were filtered for detection pValue ≤ 0.01 and normalised using robust spline normalisation with lumi in R and batch corrected using ComBat.
|
| |
|
| Submission date |
Feb 27, 2014 |
| Last update date |
Jun 09, 2014 |
| Contact name |
Rathi D Thiagarajan |
| E-mail(s) |
rthiagarajan@ucsd.edu
|
| Organization name |
UCSD
|
| Department |
Reproductive Medicine
|
| Lab |
Louise Laurent
|
| Street address |
2880 Torrey Pines Scenic Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE55439 |
Banking Placental Tissue: An Optimized Collection Procedure for Genome-Wide Analysis of Nucleic Acids [gene expression] |
| GSE55440 |
Banking Placental Tissue: An Optimized Collection Procedure for Genome-Wide Analysis of Nucleic Acids |
|
