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Bioinformatics Vol. 19 no. 8 2003
Pages 952-955
© 2003 Oxford University Press

Computation method to identify differential allelic gene expression and novel imprinted genes

Howard H. Yang , Ying Hu , Michael Edmonson , Kenneth Buetow and Maxwell P. Lee *

Laboratory of Population Genetics, National Cancer Institute, Gaithersburg, MD 20877, USA

Received on August 23, 2002 ; revised on November 13, 2002 ; accepted on November 17, 2002

Motivation: Genomic imprinting plays an important role in both normal development and diseases. Abnormal imprinting is strongly associated with several human diseases including cancers. Most of the imprinted genes were discovered in the neighborhood of the known imprinted genes. This approach is difficult to extend to analyze the whole genome. We have decided to take a computational approach to systematically search the whole genome for the presence of mono-allelic expressed genes and imprinted genes in human genome.

Results: A computational method was developed to identify novel imprinted or mono-allelic genes. Individuals represented in human cDNA libraries were genotyped using Bayesian statistics, and differential expression of polymorphic alleles was identified. A significant reduction in the number of libraries that expressed both alleles, measured by Z-statistics, is a strong indicator for an imprinted or a mono-allelic gene.

Availability: The data sets are available at http://leelab.nci.nih.gov/leelab/jsp/IGDM/IGDM.html

Contact: leemax{at}mail.nih.gov.

Supplementary information: http://leelab.nci.nih.gov/leelab/jsp/IGDM/IGDM.html

* To whom correspondence should be addressed.


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