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Status |
Public on Aug 17, 2015 |
Title |
Preterm 10 (PT10) |
Sample type |
genomic |
|
|
Source name |
preterm_umbilical cord blood DNA
|
Organism |
Homo sapiens |
Characteristics |
gender: Female gestational_age (days): 251 oxytocin: No initiation of labor: Spontaneous contractions tissue: Umbilical cord blood
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA from Umbilical Cord Blood was isolated by Gentra Autopure LS98TM system (Gentra Systems)
|
Label |
Cy5 and Cy3
|
Label protocol |
Standard Illumina Protocol
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|
|
Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol
|
Scan protocol |
standard Illumina Protocol
|
Description |
Preterm sample SAMPLE 10
|
Data processing |
The quality control was performed using the array quality metrics and ChAMP R packages. 2 samples were excluded due to failed quality control. BMIQ normalization was performed on 22 samples and differential methylated values were calculated on M values (limma package). The non_normalized.txt contains unmethylated and methylated signal intensities (for all 24 samples).
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|
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Submission date |
Mar 03, 2015 |
Last update date |
Aug 17, 2015 |
Contact name |
Febilla Fernando |
E-mail(s) |
j.f.fernando@amc.nl
|
Phone |
+31205661882
|
Organization name |
Academic Medical Center
|
Department |
Reproductive Biology Laboratory
|
Street address |
Meibergdreef 9
|
City |
Amsterdam |
ZIP/Postal code |
1105AZ |
Country |
Netherlands |
|
|
Platform ID |
GPL13534 |
Series (1) |
GSE66459 |
The idiopathic preterm delivery methylation profile in umbilical cord blood |
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