Advanced analysis and visualization of gene copy number and expression data

BMC Bioinformatics

Table 1 Resulted txt-file

Gene name	Basepair	EXP	CGH	Filtered CGH	Interpolated
ENSG00000187583	891740	NaN	NaN	0,0452	1
ENSG00000187642	900447	0,0306	NaN	0,0452	1
ENSG00000188290	924207	-0,1220	NaN	0,0452	1
ENSG00000187608	938666	-0,2577	0,9464	0,0452	0
ENSG00000188157	945366	-0,4694	0,8683	0,0452	0
ENSG00000131591	1007061	-0,7750	NaN	0,0362	1
ENSG00000186891	1128751	0,3375	NaN	0,0184	1
ENSG00000186827	1136569	-0,1087	NaN	0,0172	1
ENSG00000078808	1142151	-0,3429	NaN	0,0164	1
ENSG00000176022	1157508	-0,5600	NaN	0,0142	1
ENSG00000160087	1179157	0,1557	1,5931	0,0110	0
ENSG00000162572	1205831	-0,3048	1,4057	-0,0221	0

First twelve rows of the text file into which the results plotted in Figure 2 are written. All the data values can be written into the text file. In this example, user has input the Ensemble names for the genes [18]. In addition cumulative basepair location, logarithmic expression value, CGH ratio, and logarithmic filtered CGH value is given. Many of the values in CGH column are NaNs, which means that the values are not detected in the CGH microarray. The last column reveals whether the filtered value is interpolated or not.

ISSN: 1471-2105