|
| Status |
Public on Apr 30, 2023 |
| Title |
amniotic fluid R2000-750knsp |
| Sample type |
genomic |
| |
|
| Source name |
amniotic fluid R2000
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: amniotic fluid
indications of invasive prenatal diagnosis: isolated increased NT
offspring gender: male
|
| Treatment protocol |
None
|
| Growth protocol |
Cell were grown according to standard conditions.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from uncultured amniotic fluid, fetal cord blood using a QIAGEN kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
As per manufacturer (Affymetrix)
|
| |
|
| Hybridization protocol |
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
|
| Scan protocol |
The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
|
| Data processing |
The array image was acquired using Affymetrix GeneChip® Operating Software (ChAS 4.0). Copy number values for individual SNPs were extracted and converted from CEL files into signal intensities using GTYPE 4.1 and Affymetrix Copy Number Analysis Tool (CNAT 4.0.1) softwares. Genomic Smoothing analysis was performed by using the smoothing window of 0 Mb, and inferred copy number states were derived from a Hidden Markov Model (HMM) based algorithm implemented in CNAT 4.0.1. Circular Binary Segmentation (Ohlsen et al., 2004) was applied using DNAcopy package for R Bioconductor on raw data.
Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; 'Signal' = Summarized signal
|
| |
|
| Submission date |
Apr 27, 2023 |
| Last update date |
Apr 30, 2023 |
| Contact name |
su linjuan |
| E-mail(s) |
candy_2005518@126.com
|
| Phone |
15280422904
|
| Organization name |
Fujian Provincial Maternity and Children's Hospital,
|
| Street address |
daoshanlu
|
| City |
fuzhou |
| ZIP/Postal code |
350001 |
| Country |
China |
| |
|
| Platform ID |
GPL18637 |
| Series (1) |
| GSE230763 |
Can non-invasive prenatal screening based on cell-free fetal DNA be utilized to assess chromosome abnormalities in fetuses with increased Nuchal Translucency? |
|
