The choice of the filtering method in microarrays affects the inference regarding dosage compensation of the active X-chromosome.

ABSTRACT:

Background

The hypothesis of dosage compensation of genes of the X chromosome, supported by previous microarray studies, was recently challenged by RNA-sequencing data. It was suggested that microarray studies were biased toward an over-estimation of X-linked expression levels as a consequence of the filtering of genes below the detection threshold of microarrays.

Methodology/principal findings

To investigate this hypothesis, we used microarray expression data from circulating monocytes in 1,467 individuals. In total, 25,349 and 1,156 probes were unambiguously assigned to autosomes and the X chromosome, respectively. Globally, there was a clear shift of X-linked expressions toward lower levels than autosomes. We compared the ratio of expression levels of X-linked to autosoma

SUBMITTER: Castagne R 

PROVIDER: S-EPMC3164665 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature