US 7,031,843 B1 · Computer methods and systems for displaying information relating to gene expression data

Abstract

The invention described herein relates to computer and display methods and systems for acquiring, storing, manipulating, analyzing, linking, retrieving and displaying the data. The methods and systems are illustrated with reference to data on constituents of biological systems, particularly data on gene expression. In this regard, the invention especially relates to interactive systems for displaying gene expression-related data in three-dimensional molecular topographies. Expressed genes and their activity are represented as peaks in the topographies. Additionally, the invention relates to methods and systems for generating and displaying delta plots, which show differences in gene expression, and to methods and systems for generating molecular movies that show changes in gene expression. While illustrated by reference to gene expression, the methods and systems can be used to generate and manipulate displays of data on other complex populations.

Claims20

Dependent claims

A method in a computer system for generating a graphic display for visualization of gene expression in a molecular topography, comprising:

providing a first set of data, the data comprising gene expression measurements and descriptive information for a first plurality of polynucleotides;
defining an X-Y plane having a first axis corresponding to sequence identifiers and a second axis corresponding to polynucleotide sizes;
generating a first gene expression profile within the X-Y plane for the first plurality of polynucleotides, the first profile comprising a plurality of peaks with each peak corresponding to a polynucleotide, the peak defined by:
(i) a first value comprising a sequence identifier for the polynucleotide;
(ii) a second value comprising a measure of size of the polynucleotide, wherein an intersection between the first value and the second value defines a point within the X-Y plane;
and
(iii) at the point, plotting along a Z-axis intersecting the X-Y plane a third value that is a measure of quantity of the polynucleotide;
wherein the plurality of peaks is generated for the first plurality of polynucleotides so that the graphic display comprises a molecular topography of gene expression.

5 more elements

Dependencies are inferred from the claim text.

Computer methods and systems for displaying information relating to gene expression data

Life of this patent

Computer methods and systems for displaying information relating to gene expression data

Life of this patent

Abstract

Claims20