NormalAnaplastic astrocytoma Glioblastoma
Figure S1; Soumya et al., 2009Malignant astrocytoma
-3.0 0.0 3.0Figure S1. One-way hierarchical clustering of significance analysis of microarray identified grade specific miRNAs that differentiate malignant astrocytoma from normal brain samples. Normalized, log 2-transformed expression ratios of significance analysis of microarrays identified differentially regulated miRNAs were subjected to one-way hierarchical clustering using TMEV software to see if gene set can cluster samples of different grade separately. A dual color code was used with red and green indicating up- and down-regulation, respectively, in the particular astrocytoma sample compared to normal brain tissue. There were 55 miRNAs found to be up regulated and 29 miRNAs down regulated in malignant astrocytomas in comparison to normal brain samples at a false discovery rate (FDR) of 0.0%.
Anaplastic astrocytoma Secondary glioblastoma
Primary glioblastoma
Figure S2; Soumya et al., 2009
-3.0 0.0 3.0
A
B
Figure S2: Identification of tumor grade specific miRNA. A and B) One-way hierarchical clustering of significance analysis of microarrays identified grade specific miRNAs that differentiate anaplastic astrocytoma and secondary glioblastoma (A) and anaplastic astrocytoma from primary glioblastoma (B). A dual color code was used with red and green indicating up- and down-regulation, respectively.
Anaplastic astrocytoma
-4
-2
0
2
4
6
8
10
U13
8
U25
1
U34
3
U37
3
U87
LN
18
LN
229
Log
2 r
atio
Normal brain Glioma cell lines
miR-21
miR-23a
-10
-8
-6
-4
-2
0
2
4
6
U13
8
U25
1
U34
3
U37
3
U87
LN
18
LN
229
Normal brain Glioma cell lines
SVG
-3
-2
-1
0
1
2
3
4
U13
8
U25
1
U34
3
U37
3
U87
LN
18
LN
229
Normal brain Glioma cell lines
SVG
miR-218
miR-219
-2
-1
0
1
2
3
4
U13
8
U25
1
U34
3
U37
3
U87
LN
18
LN
229
SVG
Normal brain Glioma cell lines
-2
-1
0
1
2
-3
miR-155 miR-16
U13
8
U25
1
U34
3
U37
3
U87
LN
18
LN
229
SVG
Glioma cell linesNormal brain
miR-25
miR-93a
miR-106b
Log
2 r
atio
Log
2 r
atio
Log
2 r
atio
Log
2 r
atio
A
B
C
D E
Figure S3; Soumya et al., 2009
Figure S3:A: Real time RT-PCR analysis showing the expression of miR-218 and miR-219 in control brain samples (seven) and glioma derived cell lines (eight). B: Real time RT-PCR analysis showing the expression of miR-21 and miR-23a in control brain samples (six) and glioma derived cell lines (seven). C: Real time RT-PCR analysis showing the expression of miR-25, miR-93 and miR-106b in control brain samples (seven) and glioma derived cell lines (eight). D: Real time RT-PCR analysis showing the expression of miR-155 in control brain samples (seven) and glioma derived cell lines (eight). E: Real time RT-PCR analysis showing the expression of miR-16 in control brain samples (seven) and glioma derived cell lines (eight).
