|
| Status |
Public on Dec 31, 2017 |
| Title |
Cord Blood Day +3 no 4F, +BMSC, Experiment 1 [Fig7] |
| Sample type |
RNA |
| |
|
| Source name |
neonatal cord blood CD34+ cells, treated as described
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: neonatal cord blood CD34+ cells
sample type: Cord blood CD34+ cells expanded from day -3 to day zero with Flt3L, SCF, and TPO; nucleofected with empty vector on Day zero (D0); co-cultured with BMSC from day zero to +3, then harvested
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared as described in the RNeasy Mini Kit (Qiagen) with on-column DNase I digestion. RNA quality was assessed by Nanodrop-1000 spectrometer for OD260/280 and OD260/230 ratio and Bioanalyzer (Agilent Technologies).
|
| Label |
Cy3
|
| Label protocol |
500 ng total RNA from each sample was amplified and labeled using the Illumina TotalPrep RNA Amplification Kit (AMIL1791, Ambion, Austin, TX) as described in the instruction manual.
|
| |
|
| Hybridization protocol |
For array assay, 750 ng biotin-labeled cRNA was combined with hybridization buffer and hybridized to the array at 58°C for 16-20 hours. After hybridization, the hybridization cartridge was disassembled and the array was washed with buffer at 55C and blocked at room temperature. Bound biotinylated cRNA was stained with streptavidin-Cy3 and then washed. Illumina HumanHT-12 V4.0 expression beadchips were used for all analyses in this series.
|
| Scan protocol |
Fluorescent signals were obtained by scanning with the iScan System.
|
| Description |
Individual sample
|
| Data processing |
Data were extracted with Gene Expression Module 1.0.6 in GenomeStudio 1.0.2 and signal intensities from multiple chips comprising this single series were quantile normalized without background subtraction to obtain normalized data as deposited.
|
| |
|
| Submission date |
Feb 20, 2013 |
| Last update date |
Dec 31, 2017 |
| Contact name |
Elias Thomas Zambidis |
| Organization name |
Johns Hopkins School of Medicine
|
| Department |
Oncology
|
| Street address |
733 N. Broadway
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
|
| Platform ID |
GPL10904 |
| Series (2) |
| GSE44429 |
Global gene expression analysis of vascular progenitors differentiated from human embryonic stem cells or induced pluripotent stem cells and their corresponding donor starting cells |
| GSE82233 |
Quality of reprogramming to induced pluripotency as a function of reprogramming method |
|
