TY - GEN
T1 - Grid-layout visualization method in the microarray data analysis interactive graphics toolkit
AU - Xiao, Li
AU - Shats, O.
AU - Sherman, S.
N1 - Funding Information:
This work was partially supported by the NSF EPSCoR grant (#0091900). This publication was made possible by NIH Grant Number RR15635 from the COBRE Program of the National Center for Research Resources.
Publisher Copyright:
© 2003 IEEE.
PY - 2003
Y1 - 2003
N2 - The expression levels of thousands of genes in different tissues or cells in different conditions can be detected all at one time by DNA microarray technology. A new, grid-layout method for the visualization results of hierarchical cluster analysis of DNA microarray data is proposed and incorporated in the microarray interactive graphics toolkit (MIGT). The grid-layout consists of a set of regular, two-dimensional grid units. Each unit represents a cluster or a group of gene clusters. The units are connected to adjacent ones by the neighborhood relation of the clusters in a hierarchical tree. Nodes lying near each other in the hierarchical tree are mapped onto nearby grid-layout units. The number of units may vary on a scale from a few dozen up to several thousands, depending on the number of the nodes in a hierarchical tree. Different colors are assigned to the units with RGB value according to the coordinates of the units, and the inter-distances, which are the distances between clusters in a hierarchical tree, and the intra-distances, which are the distances between genes within one cluster. The closer the inter-distances, the more similar the color of the units are, the smaller the intra-distances, the warmer the color of the unit is.
AB - The expression levels of thousands of genes in different tissues or cells in different conditions can be detected all at one time by DNA microarray technology. A new, grid-layout method for the visualization results of hierarchical cluster analysis of DNA microarray data is proposed and incorporated in the microarray interactive graphics toolkit (MIGT). The grid-layout consists of a set of regular, two-dimensional grid units. Each unit represents a cluster or a group of gene clusters. The units are connected to adjacent ones by the neighborhood relation of the clusters in a hierarchical tree. Nodes lying near each other in the hierarchical tree are mapped onto nearby grid-layout units. The number of units may vary on a scale from a few dozen up to several thousands, depending on the number of the nodes in a hierarchical tree. Different colors are assigned to the units with RGB value according to the coordinates of the units, and the inter-distances, which are the distances between clusters in a hierarchical tree, and the intra-distances, which are the distances between genes within one cluster. The closer the inter-distances, the more similar the color of the units are, the smaller the intra-distances, the warmer the color of the unit is.
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U2 - 10.1109/HICSS.2003.1174805
DO - 10.1109/HICSS.2003.1174805
M3 - Conference contribution
AN - SCOPUS:84969529140
T3 - Proceedings of the 36th Annual Hawaii International Conference on System Sciences, HICSS 2003
BT - Proceedings of the 36th Annual Hawaii International Conference on System Sciences, HICSS 2003
A2 - Sprague, Ralph H.
PB - Institute of Electrical and Electronics Engineers Inc.
T2 - 36th Annual Hawaii International Conference on System Sciences, HICSS 2003
Y2 - 6 January 2003 through 9 January 2003
ER -