Apparatus, method, and computer program product for determining gene function and functional groups using chromosomal distribution patterns
View Patent ↗A method, apparatus, and computer program product for analyzing gene expressions is presented. An operation is performed for determining a gene expression pattern for a condition, wherein the gene expression pattern comprises a gene expression. Next, a spatial-expression pattern is formed by selecting a chromosomal region having an exon; and associating the gene expression within the gene expression pattern with its corresponding exon. A further operation may be performed, where in the forming of the spatial-expression pattern, a spatial-expression pattern signal is created as a representation of the spatial-expression pattern. The magnitude of the spatial-expression pattern signal at any point is determined by an expression level of the corresponding exon. Spatial patterns may be identified in the signal by means of various signal processing techniques such as Fourier or Wavelet transforms. Also, multiple regions and/or conditions may be tested and their reaction patterns compared to determine related genetic regions.
1. A computer implemented method of analyzing gene expressions, the method comprising an act of:
causing a computer to execute instructions encoded upon a memory, such that upon execution, the computer performs operations of:
determining a first gene expression pattern for a first condition, wherein the first gene expression pattern comprises a gene expression;
forming a first spatial-expression pattern by;
selecting a chromosomal region having an exon;
associating the gene expression within the first gene expression pattern with its corresponding exon;
wherein the act of forming the first spatial-expression pattern further comprises an act of creating a first spatial-expression pattern signal wherein the first spatial-expression pattern signal is a representation of the first spatial-expression pattern where a magnitude of the first spatial-expression pattern signal at any point is determined by an expression level of the corresponding exon;
identifying first regular spatial patterns in the first spatial-expression pattern signal; and
wherein
the act of identifying first regular spatial patterns in the first spatial-expression pattern signal is performed through the use of Fourier transform signal processing.
2. The method of claim 1 further comprising an act of:
identifying a group of genes contributing to local maximum points of the generated Fourier transform spectrum.
3. An apparatus for analyzing gene expressions, the apparatus comprising a computer system including a processor, a memory coupled with the processor, an input coupled with the processor for receiving input data, and an output coupled with the processor for outputting data, wherein the memory includes instructions encoded thereon, such that upon execution of the instructions, the computer system performs operations of:
determining a first gene expression pattern for a first condition, wherein the first gene expression pattern comprises a gene expression;
forming a first spatial-expression pattern by:
selecting a chromosomal region having an exon; and
associating the gene expression within the first gene expression pattern with its corresponding exon; and
wherein forming the first spatial-expression pattern includes creating a first spatial-expression pattern signal wherein the first spatial-expression pattern signal is a representation of the first spatial-expression pattern where a magnitude of the first spatial-expression pattern signal at any point is determined by an expression level of the corresponding, exon;
identifying, first regular spatial patterns in the first spatial-expression pattern signal; and
wherein identifying first regular spatial patterns in the first spatial-expression pattern signal is performed through the use of Fourier transform signal processing.
4. A computer program product for analyzing gene expressions, the computer program product comprising instructions, encoded in a non-transitory computer-readable medium, for causing a computer to perform operations of:
determining a first gene expression pattern for a first condition, wherein the first gene expression pattern comprises a gene expression;
forming a first spatial-expression pattern by;
selecting a chromosomal region haying an exon; and
associating the gene expression within the first gene expression pattern with its corresponding exon; and
wherein forming the first spatial-expression pattern includes creating a first spatial-expression pattern signal wherein the first spatial-expression pattern signal is a representation of the first spatial-expression pattern where a magnitude of the first spatial-expression pattern signal at any point is determined by an expression level of the corresponding exon;
identifying first regular spatial patterns in the first spatial-expression pattern signal; and
wherein identifying first regular spatial patterns in the first spatial-expression pattern signal is performed through the use of Fourier transform signal processing.