| Enriched clinical annotations |
|---|
| For each of the clinical annotations, we tested whether it was enriched in the set of arrays in which the module is significantly induced (or repressed). Below we list all such annotations that were enriched in this module with an FDR corrected p-value of 0.05 ('P-value' column), along with the number ('Hits' column) of induced (or repressed) module's arrays in which they appear. We also show the fraction of the module's induced (or repressed) arrays with the given annotation ('Hits (%)' column). For completeness, we also list the total number of relevant induced arrays in the module ('Module hits in category' column), total number of arrays in the compendium in which the corresponding annotation is present ('Arrays in annotation' column), and the total number of relevant arrays in the compendium ('Arrays' column). Note that the 'relevant' arrays may be different for each annotation, since it includes only arrays in which the annotation was relevant (i.e., present or not present) and excludes arrays where the value of the annotation was not known. Rows that correspond to annotations that were enriched in the induced arrays of the module have a red background, while rows corresponding to annotations enriched in the repressed arrays have a green background. For each annotation, we also list the other modules in which it was enriched. |
| Clinical annotation |
Category |
P-value |
Hits |
Hits(%) |
Module hits in category |
Arrays in annotation |
Arrays |
| Acute leukemia (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Cancer and cell line (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Cancer (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Hematologic cancer and cell line (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Hematologic cancer (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Hematologic samples and cell lines (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Leukemia (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Leukemia or leukemia cell line (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Monocytes (Leukemia*) |
Leukemia* |
2.1e-26 |
128 |
13.0 |
980 |
141 |
1945 |
| Non small cell lung cancer and cell line (Lung cancer*) |
Lung cancer* |
4.3e-23 |
168 |
17.1 |
980 |
205 |
1945 |
| Non small cell lung cancer (Lung cancer*) |
Lung cancer* |
4.3e-23 |
168 |
17.1 |
980 |
205 |
1945 |
| Cancer and cell line (Neuro tumors*) |
Neuro tumors* |
4.7e-22 |
83 |
8.4 |
980 |
86 |
1945 |
| Cancer (Neuro tumors*) |
Neuro tumors* |
4.7e-22 |
83 |
8.4 |
980 |
86 |
1945 |
| CNS cancer or cell line (Neuro tumors*) |
Neuro tumors* |
1.5e-20 |
78 |
7.9 |
980 |
81 |
1945 |
| CNS tumor (Neuro tumors*) |
Neuro tumors* |
1.5e-20 |
78 |
7.9 |
980 |
81 |
1945 |
| Lymphoma (B lymphoma) |
B lymphoma |
2.8e-20 |
52 |
76.4 |
68 |
77 |
245 |
| Liver tissue (Liver cancer*) |
Liver cancer* |
2.5e-19 |
76 |
25.6 |
296 |
187 |
1945 |
| Liver tissue, cancer or cell line (Liver cancer*) |
Liver cancer* |
1.0e-17 |
76 |
25.6 |
296 |
197 |
1945 |
| CNS tissue, cancer or cell line (Neuro tumors*) |
Neuro tumors* |
6.4e-17 |
78 |
7.9 |
980 |
85 |
1945 |
| Lung tissue, cancer or cell line (Lung cancer*) |
Lung cancer* |
7.8e-17 |
202 |
20.6 |
980 |
276 |
1945 |
| Hematologic samples and cell lines (B lymphoma) |
B lymphoma |
3.8e-16 |
61 |
89.7 |
68 |
121 |
245 |
| Cancer and cell line (Lung cancer*) |
Lung cancer* |
1.3e-15 |
185 |
18.8 |
980 |
252 |
1945 |
| Cancer (Lung cancer*) |
Lung cancer* |
1.3e-15 |
185 |
18.8 |
980 |
252 |
1945 |
| Cancer and cell line (Various tumors*) |
Various tumors* |
4.0e-14 |
89 |
9.0 |
980 |
105 |
1945 |
| Cancer (Various tumors*) |
Various tumors* |
4.0e-14 |
89 |
9.0 |
980 |
105 |
1945 |
| Lung cancer (Lung cancer*) |
Lung cancer* |
7.0e-14 |
173 |
17.6 |
980 |
238 |
1945 |
| Lung cancer or cell line (Lung cancer*) |
Lung cancer* |
7.0e-14 |
173 |
17.6 |
980 |
238 |
1945 |
| Lung carcinoid (Lung cancer) |
Lung cancer |
1.0e-13 |
19 |
33.3 |
57 |
20 |
276 |
| Non-tumor liver tissue (Liver cancer) |
Liver cancer |
1.1e-13 |
54 |
68.3 |
79 |
76 |
207 |
| Hepatitis infected liver (Liver cancer*) |
Liver cancer* |
3.1e-13 |
59 |
19.9 |
296 |
156 |
1945 |
| Cancer and cell line (Liver cancer) |
Liver cancer |
5.3e-12 |
65 |
91.5 |
71 |
126 |
207 |
| CNS tissue, cancer or cell line (Various tumors) |
Various tumors |
2.2e-10 |
10 |
100 |
10 |
21 |
154 |
| Breast tissue or cancer (Breast cancer*) |
Breast cancer* |
3.4e-09 |
43 |
14.5 |
296 |
118 |
1945 |
| Female hormonal tissue or cancer (Breast cancer*) |
Breast cancer* |
3.4e-09 |
43 |
14.5 |
296 |
118 |
1945 |
| Adenocarcinoma (Breast cancer*) |
Breast cancer* |
2.5e-08 |
40 |
13.5 |
296 |
112 |
1945 |
| Breast cancer (Breast cancer*) |
Breast cancer* |
2.5e-08 |
40 |
13.5 |
296 |
112 |
1945 |
| Cancer (Breast cancer*) |
Breast cancer* |
2.5e-08 |
40 |
13.5 |
296 |
112 |
1945 |
| Female hormonal cancer (Breast cancer*) |
Breast cancer* |
2.5e-08 |
40 |
13.5 |
296 |
112 |
1945 |
| Prostate (Prostate cancer*) |
Prostate cancer* |
4.2e-08 |
77 |
7.8 |
980 |
101 |
1945 |
| Cell line (NCI60*) |
NCI60* |
8.4e-07 |
95 |
9.6 |
980 |
135 |
1945 |
| Epithelial cell line (NCI60) |
NCI60 |
9.9e-07 |
32 |
33.3 |
96 |
32 |
139 |
| Female hormonal cancer or cell line (Breast cancer*) |
Breast cancer* |
1.2e-06 |
40 |
13.5 |
296 |
127 |
1945 |
| Female hormonal tissue, cancer or cell line (Breast cancer*) |
Breast cancer* |
1.3e-06 |
43 |
14.5 |
296 |
141 |
1945 |
| Breast cancer or cell line (Breast cancer*) |
Breast cancer* |
1.6e-06 |
40 |
13.5 |
296 |
128 |
1945 |
| Breast tissue, cancer or cell line (Breast cancer*) |
Breast cancer* |
1.6e-06 |
43 |
14.5 |
296 |
142 |
1945 |
| Cancer (Liver cancer) |
Liver cancer |
2.9e-06 |
55 |
77.4 |
71 |
115 |
207 |
| Cancer and cell line (NCI60*) |
NCI60* |
4.1e-06 |
95 |
9.6 |
980 |
138 |
1945 |
| Normal cerebellum tissue (Neuro tumors) |
Neuro tumors |
5.8e-06 |
4 |
66.6 |
6 |
4 |
90 |
| Normal CNS tissue (Neuro tumors) |
Neuro tumors |
5.8e-06 |
4 |
66.6 |
6 |
4 |
90 |
| Normal tissue (Neuro tumors) |
Neuro tumors |
5.8e-06 |
4 |
66.6 |
6 |
4 |
90 |
| Lymphoma or lymphoma cell line (B lymphoma) |
B lymphoma |
1.0e-05 |
60 |
88.2 |
68 |
167 |
245 |
| Liver cancer cell line (Liver cancer) |
Liver cancer |
1.4e-05 |
10 |
14.0 |
71 |
10 |
207 |
| Adenocarcinoma (Lung cancer) |
Lung cancer |
1.7e-05 |
137 |
67.8 |
202 |
166 |
276 |
| Cancer and cell line (Breast cancer*) |
Breast cancer* |
3.3e-05 |
40 |
13.5 |
296 |
143 |
1945 |
| Breast cancer cell line (Breast cancer) |
Breast cancer |
3.9e-05 |
14 |
25.9 |
54 |
17 |
152 |
| Normal CNS tissue (Various tumors) |
Various tumors |
4.5e-05 |
4 |
40 |
10 |
5 |
154 |
| Diffuse large B cell lymphoma tumor or cell line (B lymphoma) |
B lymphoma |
5.1e-05 |
51 |
75 |
68 |
134 |
245 |
| Hepatocellular carcinoma (Liver cancer) |
Liver cancer |
7.6e-05 |
49 |
69.0 |
71 |
104 |
207 |
| CNS cancer or cell line (Various tumors) |
Various tumors |
7.8e-05 |
6 |
60 |
10 |
16 |
154 |
| CNS tumor (Various tumors) |
Various tumors |
7.8e-05 |
6 |
60 |
10 |
16 |
154 |
| Cancer and cell line (NCI60*) |
NCI60* |
7.8e-05 |
38 |
12.8 |
296 |
138 |
1945 |
| Cell line (Breast cancer) |
Breast cancer |
0.0001 |
20 |
37.0 |
54 |
30 |
152 |
| Cell line (Liver cancer) |
Liver cancer |
0.0001 |
10 |
14.0 |
71 |
11 |
207 |
| Adenocarcinoma (Liver cancer) |
Liver cancer |
0.0001 |
46 |
64.7 |
71 |
97 |
207 |
| Cancer and cell line (Gliomas*) |
Gliomas* |
0.0001 |
36 |
3.6 |
980 |
47 |
1945 |
| Cancer (Gliomas*) |
Gliomas* |
0.0001 |
36 |
3.6 |
980 |
47 |
1945 |
| CNS cancer or cell line (Gliomas*) |
Gliomas* |
0.0001 |
36 |
3.6 |
980 |
47 |
1945 |
| CNS tissue, cancer or cell line (Gliomas*) |
Gliomas* |
0.0001 |
36 |
3.6 |
980 |
47 |
1945 |
| CNS tumor (Gliomas*) |
Gliomas* |
0.0001 |
36 |
3.6 |
980 |
47 |
1945 |
| Normal cerebellum tissue (Various tumors) |
Various tumors |
0.0002 |
3 |
30 |
10 |
3 |
154 |
| Female hormonal cancer cell line (Breast cancer) |
Breast cancer |
0.0002 |
12 |
22.2 |
54 |
15 |
152 |
| Visual display |
|---|
| Below is a visual display of the module. Shown are those arrays in which the module's genes significantly change, and the direction of change (induction/repression) in each array is indicated (middle, labeled 'Module changes'; red/green row). The arrays that correspond to the significant clinical attributes are also shown (top; brown rows). The gene sets that compose the module are also shown (left) along with an indication of the membership of the module genes in these gene sets. |
| You can also view the images within GeneXPress by loading the module gxp file file. |
| Note: Since there are 552 genes, this image does not display the individual gene names, but rather condenses each gene to a single pixel without displaying its name. You can fully view the image for this module within GeneXPress, by loading any of the four files mentioned in the line above. |
| Note: Since there are 1277 experiments, this image does not display the individual experiment names, but rather condenses each experiment to a single pixel without displaying its name. You can fully view the image for this module within GeneXPress, by loading any of the four files mentioned in the line above |
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