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PMID: 15930497 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S.

Genome-wide prediction of imprinted murine genes.

Genome research ·Vol. 15 ·No. 6 ·2005-06-00 ·Pages 875-84

Luedi PP, Hartemink AJ, Jirtle RL

Abstract

Imprinted genes are epigenetically modified genes whose expression is determined according to their parent of origin. They are involved in embryonic development, and imprinting dysregulation is linked to cancer, obesity, diabetes, and behavioral disorders such as autism and bipolar disease. Herein, we train a statistical model based on DNA sequence characteristics that not only identifies potentially imprinted genes, but also predicts the parental allele from which they are expressed. Of 23,788 annotated autosomal mouse genes, our model identifies 600 (2.5%) to be potentially imprinted, 64% of which are predicted to exhibit maternal expression. These predictions allowed for the identification of putative candidate genes for complex conditions where parent-of-origin effects are involved, including Alzheimer disease, autism, bipolar disorder, diabetes, male sexual orientation, obesity, and schizophrenia. We observe that the number, type, and relative orientation of repeated elements flanking a gene are particularly important in predicting whether a gene is imprinted.

MeSH Terms
Animals Genome Genomic Imprinting Humans Mice Sequence Analysis, DNA/methods Software
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Luedi Philippe P
Center for Bioinformatics and Computational Biology, Duke University, Durham, North Carolina 27708, USA.
Hartemink Alexander J
Jirtle Randy L
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Article Info
Journal
Genome research
Abbr.
Genome Res
ISSN
1088-9051
DOI
10.1101/gr.3303505
Published
2005-06-00
Pages
875-84
Language
English
Region
United States
NLM ID
9518021
PMCID
PMC1142478
Subset
IM
Grants
NIEHS NIH HHS · R21 ES013053 · United States
NCI NIH HHS · CA25951 · United States
NCI NIH HHS · R01 CA025951 · United States
NIEHS NIH HHS · R01 ES008823 · United States
NIEHS NIH HHS · ES08823 · United States
NIEHS NIH HHS · ES13053 · United States
External Links
PubMed source DOI: 10.1101/gr.3303505 PMC Full Text View journal details
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