HOME INFORMATION   DATA SOURCE   TREE VIEW   DATABASE SEARCH   DISTRIBUTION MAP   DOWNLOAD   HELP   CONTACT  

How To




Phylogenomic analysis allow users to integrate diverse dataset into the phylgenetic trees of kinase sub-families.

A. Retrieval of gene features, orthologs, available gene muatant lines, topology and interactome data within a kinase subfamily.

1. In the treeview tab, select any of the kinase subfamily button to view the phylogenetic tree.

2. Click on the checkbox to select the data of interest. Users can select multiple checkbox across different datasets.

3. Click on submit button at the bottom to view the selected dataset in a tabular format.

B. Meta-expression analysis.

1. In the treeview tab, select any of the kinase subfamily button to view the phylogenetic tree.

2. Under the Tanscriptome data, select any (or multiple) databases that are to be scanned for the chosen kinase subfamily. Available databases are composed of microarray and RNASeq experiments.

3. Select any of the display mode. Display value option can be used to view the expression values(intenisty/fold change/FPKM) in a tabular format. In the Display heatmap option, the expression values are shown as heatmap.

4. Select suitable scalebar if fold change databases are used. Default is -2, 0, 2.

5. Click submit to analyze the gene expression. To save the expression data (for Display value option), clcik on the respective database link below the table.



Under the Distribution map tab, tandem and segmental duplicated genes are shown in a chromosome scale. Segmental duplicates are indicated by blue color lines. Gene sub families are indicated with different color keys and color code is given at the top. Click or hover on the rectangle box to view the gene information.



Under the Database search tab, input RGAP locus id and click submit. For the sequence search, select apprproiate Blast program and one of the three databases after input the sequence.