Table 1 Gene-expression studies and graph measures
From: Characterization of protein-interaction networks in tumors
Study no. | Study author | cancer type | class I | class II | No. of Samples | N | G | G' | Size (3) | distribution (2) | relevance (3) | density (8) | modularity (3) | circles (3) | total (22) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | Rosenwald et al. | Leukemia | Blood B cell, Blood T cells, Cell Line, Cord Blood B cells, Cord Blood T cells, Diffuse Large Cell, Follicular Lymphoma, Nonblastic Cell Line, Thymic T cells, Tonsil GC B | Chronic Lymphocytic Leukemia | 118 | 264 | 426 | 384 | 3 | 2 | 3 | 6 | 3 | 1 | 18 |
2 | Segal et al. | Soft Tissue Cancer | Cell Line | Tumor | 81 | 156 | 252 | 209 | 3 | 2 | 1 | 6 | 3 | 2 | 17 |
3 | Rosenwald et al. | Diffuse Large B- Cell Lymphoma – Dlbcl Subgroup | Activated B-Cell-like DLBCL, Type III B-Cell-like DLBCL | Germinal-Center B- Cell-like | 240 | 115 | 189 | 165 | 3 | 2 | 2 | 6 | 1 | 2 | 16 |
4 | Rosenwald et al. | Diffuse Large B- Cell Lymphoma – Dlbcl Subgroup | Activated B-Cell-like DLBCL, Germinal-Center B-Cell-like | Type III B-Cell-like DLBCL | 240 | 129 | 208 | 182 | 3 | 2 | 1 | 6 | 2 | 2 | 16 |
5 | Welsh et al. | Ovary – Type | Normal Ovary | Ovarian Adenocarcinoma | 32 | 96 | 153 | 128 | 3 | 2 | 1 | 6 | 1 | 1 | 14 |
6 | Beer et al. | Lung – Type | Non-neoplastic Lung | Lung Adenocarcinoma | 96 | 158 | 267 | 247 | 3 | 1 | 0 | 6 | 3 | 1 | 14 |
7 | Notterman et al. | Colon – Type | Normal Colon | Ovarian Adenocarcinoma | 36 | 41 | 62 | 44 | 3 | 1 | 1 | 5 | 1 | 2 | 13 |
8 | Higgins et al. | Kidney – Type | Normal Kidney | Clear Renal Cell Carcinoma | 29 | 62 | 96 | 76 | 3 | 1 | 2 | 5 | 1 | 1 | 13 |
9 | Khan et al. | Small Round Blue Cell Tumor/Cell Line | Cell Line | Tumor Sample | 86 | 126 | 196 | 155 | 3 | 0 | 1 | 5 | 2 | 1 | 12 |
10 | Lancaster et al. | Ovary – Type | Ovary | Ovarian Adenocarcinoma | 34 | 106 | 169 | 135 | 3 | 1 | 1 | 5 | 1 | 1 | 12 |
11 | Welsh et al. | Prostate – Type | Normal Prostate | Prostate Cancer | 34 | 50 | 77 | 58 | 3 | 1 | 0 | 4 | 1 | 2 | 11 |
12 | Singh et al. | Prostate – Type | Prostate | Prostate Carcinoma | 102 | 300 | 469 | 409 | 2 | 1 | 1 | 3 | 2 | 2 | 11 |
13 | Liang et al. | Brain – Type | Normal Brain | Glioblastoma Multiforme | 33 | 53 | 86 | 70 | 3 | 1 | 0 | 5 | 1 | 1 | 11 |
14 | Higgins et al. | Kidney – Type | Angiomyolipoma, Chromophobe Renal Cell Carcinoma, Granular Renal Cell Carcinoma, Oncocytoma, Papillary Renal Cell Carcinoma | Normal Kidney | 44 | 55 | 87 | 64 | 3 | 1 | 0 | 4 | 1 | 1 | 10 |
15 | Sperger et al. | Germ Cell – Type | Normal Testis | Seminoma | 37 | 219 | 342 | 279 | 3 | 1 | 0 | 4 | 1 | 1 | 10 |
16 | Shai et al. | Brain – Type | Normal White Matter | Glioblastoma Multiforme | 32 | 56 | 84 | 63 | 3 | 1 | 0 | 4 | 1 | 1 | 10 |
17 | Rickman et al. | Brain – Type | Normal Neocortex of Temporal Lobe | Glioma | 51 | 46 | 67 | 42 | 3 | 0 | 0 | 3 | 1 | 1 | 8 |
18 | Rosenwald et al. | Lymphoid – Type | Normal Blood CD19+ B-Cells, Normal Germinal Center B-Cells | Diffuse Large B-Cell Lymphoma | 284 | 37 | 60 | 32 | 2 | 0 | 0 | 4 | 1 | 0 | 7 |
19 | Frierson et al. | Salivary Gland – Type | Normal Salivary Gland | Adenoid Cystic Carcinoma of Salivary Gland | 22 | 70 | 104 | 72 | 1 | 1 | 0 | 2 | 1 | 1 | 6 |
20 | Bhattacharjee et al. | Lung – Type | Normal Lung | Lung Adenocarcinoma | 156 | 128 | 195 | 149 | 2 | 0 | 0 | 1 | 1 | 1 | 5 |
21 | Bhattacharjee et al. | Lung – Type | Normal Lung | Squamous Cell Lung Carcinoma | 38 | 111 | 167 | 123 | 0 | 1 | 0 | 0 | 1 | 1 | 3 |
22 | Lenburg et al. | Kidney – Type | Normal Kidney | Renal Clear Cell Carcinoma | 18 | 13 | 14 | 3 | 0 | 0 | 0 | 1 | 0 | 0 | 1 |
23 | Garber et al. | Lung – Type | Normal Lung | Squamous Cell Carcinoma | 19 | 26 | 34 | 5 | 0 | 0 | 0 | 0 | 1 | 0 | 1 |
24 | Alon et al. | Colon – Type | Colon | Colon Adenocarcinoma | 62 | 13 | 16 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
25 | LaTulippe et al. | Prostate – Type | Non-neoplastic Prostate | Prostate Carcinoma | 26 | 24 | 29 | 9 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
26 | Iacobuzio- Donahue et al. | Pancreas – Type | Normal pancreas | Pancreatic Adenocarcinoma | 17 | 80 | 106 | 35 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
27 | Mutter et al. | Uterus – Type | Normal Endometrium | Endometrioid Adenocarcinoma | 14 | 16 | 18 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
28 | Bhattacharjee et al. | Lung – Type | Normal Lung | Small Cell Lung Cancer | 23 | 17 | 20 | 7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
29 | Garber et al. | Lung – Type | Normal Lung | Lung Adenocarcinoma | 46 | 45 | 58 | 9 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |