|
| Status |
Public on Jul 17, 2017 |
| Title |
Fetal_liver_erythroblast_rep9_genotype |
| Sample type |
genomic |
| |
|
| Source name |
Erythroblast differentiated from human fetal liver CD34+ hematopoietic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
developmental stage: fetal
tissue: Fetal liver
|
| Growth protocol |
Fetal and adult erythroblasts were generated from CD34+ hematopoietic stem cells using a two-phase serum-free culture as described previously (Sankaran VG et al. Science 2008).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
We extracted genomic DNA with the Gentra Puregene Cell Kit (Qiagen)
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
4 μL of genomics DNA at 50ng/μL (approximately 200ng of genomic DNA) was whole genome amplified and fragmented.
|
| |
|
| Hybridization protocol |
Resuspended DNA was hybridized to locus-specific probes bound to the surface of each BeadChip. Unhybridized or non-specifically hybridized DNA was removed by gentle washing of BeadChips. DNA that remained specifically bound to the BeadChip was then genotyped using a fluorescently labeled single base extension assay
|
| Scan protocol |
Each BeadChip was scanned and analyzed using the Illumina iScan Reader.
|
| Description |
Sample name: BA000LET8268
Genomic DNA extracted from erythroblasts was genotyped using Infinium HumanOmniExpress-12 v1.1 Genotyping BeadChips (Illumina).
|
| Data processing |
Genomic DNA extracted from erythroblasts was genotyped using Infinium nfinium HumanOmniExpress-12 v1.1 Genotyping BeadChips (Illumina). Scanned images were analyzed using Illumina’s GenomeStudio2011.1, with the following parameters: A) cluster algorithm GenTrain 2.0, B) No-Call threshold of 0.15 checked. The data analysis process was performed using the standard Illumina HumanOmniExpress-12v1-1_B cluster file.
Processed data include: Genotype: A,B,or - (no call), Theta, R, B Allele frequency and Log R Ratio.
|
| |
|
| Submission date |
May 16, 2017 |
| Last update date |
Jul 17, 2017 |
| Contact name |
Guillaume Lettre |
| E-mail(s) |
guillaume.lettre@mhi-humangenetics.org
|
| Organization name |
Montreal Heart Institute
|
| Street address |
5000 rue Bélanger
|
| City |
Montreal |
| State/province |
Québec |
| ZIP/Postal code |
H1T 1C8 |
| Country |
Canada |
| |
|
| Platform ID |
GPL18900 |
| Series (2) |
| GSE98992 |
An erythroid-specific enhancer of ATP2B4 mediates red blood cell hydration and malaria susceptibility [genotype] |
| GSE98993 |
An erythroid-specific enhancer of ATP2B4 mediates red blood cell hydration and malaria susceptibility |
|
