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Table 3 Summary of the DNA and cDNA genotyping for the Illumina assay.

From: High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta

 

Description

Genes

SNPs

A

Tested on the array

932

1536

B

Above intensity threshold (11.25)

446

576

C

As in B with at least two heterozygous samples

393

497

D

As in C with good quality probe hybridisation in homozygotes

214

261

E

As in D with at least two heterozygotes significant for ASE (p < 0.01)

49

56

F

As in E for the candidate genes only

39 (18.2%)

44 (16.9%)

  1. Numbers of SNPs and genes that are (A) tested on the Illumina array, (B) have passed the intensity cut-off, (C) have sufficient heterozygous placentas, (D) have passed hybridisation probe quality controls and (E) for which our statistical test detected ASE. Column F is the same as E but without taking into account the imprinted control genes.