|Title||In silico genetics: identification of a functional element regulating H2-Ealpha gene expression.|
|Publication Type||Journal Article|
|Year of Publication||2004|
|Authors||Liao, G, Wang, J, Guo, J, Allard, J, Cheng, J, Ng, A, Shafer, S, Puech, A, McPherson, JD, Foernzler, D, Peltz, G, Usuka, J|
|Date Published||2004 Oct 22|
|Keywords||Alleles, Animals, Binding Sites, Computational Biology, Electrophoretic Mobility Shift Assay, Gene Expression Profiling, Gene Expression Regulation, Genes, MHC Class II, Genetic Variation, H-2 Antigens, Haplotypes, Hydrocarbons, Aromatic, Introns, Liver, Lung, Major Histocompatibility Complex, Mice, Mice, Inbred Strains, Oligodeoxyribonucleotides, Oligonucleotide Array Sequence Analysis, Phenotype, Polymorphism, Single Nucleotide, Receptors, Aryl Hydrocarbon, Regulatory Sequences, Nucleic Acid, Serum Response Factor, Transcription Factors|
Computational tools can markedly accelerate the rate at which murine genetic models can be analyzed. We developed a computational method for mapping phenotypic traits that vary among inbred strains onto haplotypic blocks. This method correctly predicted the genetic basis for strain-specific differences in several biologically important traits. It was also used to identify an allele-specific functional genomic element regulating H2-Ealpha gene expression. This functional element, which contained the binding sites for YY1 and a second transcription factor that is probably serum response factor, is located within the first intron of the H2-Ealpha gene. This computational method will greatly improve our ability to identify the genetic basis for a variety of phenotypic traits, ranging from qualitative trait information to quantitative gene expression data, which vary among inbred mouse strains.
|Grant List||1 R01 HG02322-01 / HG / NHGRI NIH HHS / United States|