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The Survival Scatter plot shows the clinical status (i.e. dead or alive) for all individuals in the patient cohort, based on the same data that underlies the corresponding Kaplan-Meier plots. Patients that are alive at last time for follow-up are shown in blue and patients who have died during the study are shown in red.
The x-axis shows the expression levels (FPKM) of the investigated gene in the tumor tissue at the time of diagnosis. The y-axis shows the follow-up time after diagnosis (years). Both axes are complimented with kernel density curves demonstrating the data density over the axes. The top density plot shows the expression levels (FPKM) distribution among dead (red) and alive patients (blue). The right density plot shows the data density of the survived years of dead patients with high and low expression levels respectively, stratified using the cutoff indicated by the vertical dashed line through the Survival Scatter plot. This cutoff is automatically defined based on the FPKM cutoff that minimizes the p-score. The cutoff can be changed by dragging the vertical line or by entering a cutoff value in the square labeled "Current cut-off".
Under the Survival Scatter plot the p-score landscape (black curve; left axis) is shown together with dead median separation (red curve; right axis). Dead median separation is the difference in median mRNA expression between patients who have died with high and low expression, respectively. It is calculated as follows: median FPKM expression of dead patients with high expression - median FPKM expression of dead patients with low expression. This is intended to aid the user in visually exploring custom cutoffs and the associated p-scores and dead median separation.
Individual patient data is displayed and can be filtered by clicking on one or more of the category buttons on the top of the page. Categories describing expression level and patient information include: high, low, alive, dead, female, male and tumor stages. The scale of the x-axis can be toggled between linear and log-scale by clicking on the "x log" button. Mouse-over function shows TCGA ID, patient information and mRNA expression (FPKM) for each patient.
& Survival analysisi
Kaplan-Meier plots summarize results from analysis of correlation between mRNA expression level and patient survival. Patients were divided based on level of expression into one of the two groups "low" (under cut off) or "high" (over cut off). X-axis shows time for survival (years) and y-axis shows the probability of survival, where 1.0 corresponds to 100 percent.
Current cut-off shows the cut-off (FPKM) currently selected. It may be changed manually. When the current cut-off is changed, the vertical dashed line indicating cut-off, the interactive survival scatter plot and the Kaplan-Meier curve will be automatically adjusted to show results accordingly.
: Best expression cut offi
Based on the FPKM value of each gene, patients were classified into two groups and association between prognosis (survival) and gene expression (FPKM) was examined. The best expression cut-off refers the FPKM value that yields maximal difference with regard to survival between the two groups at the lowest log-rank P-value. Best expression cut-off was selected based on survival analysis .
When clicking on this number, the vertical dashed line indicating cut-off, the interactive survival plot, and the Kaplan-Meier curve will be adjusted to show results based on the best expression cut-off.
Median expression refers to the median FPKM value calculated based on the gene expression (FPKM) data from all patients in this dataset. When clicking on this number, the vertical dashed line indicating cut-off, the interactive survival plot, and the Kaplan-Meier curve will be adjusted to show results based on the median expression.
Median follow up time refers to the median time (years) after diagnosis with this type of cancer, based on clinical data from all patients in this dataset.
: N/A P scorei
Log-rank P value for Kaplan-Meier plot showing results from analysis of correlation between mRNA expression level and patient survival.
N/A 3-year survival highi
5-year survival for patients with higher expression than the expression cutoff.
For melanoma and glioma, 3-year survival is shown.
N/A 3-year survival lowi
5-year survival for patients with lower expression than the expression cutoff.
For melanoma and glioma, 3-year survival is shown.
N/A
TCGA RNA samplesi
RNA-seq data is reported as median FPKM (number Fragments Per Kilobase of exon per Million reads), generated by the The Cancer Genome Atlas (TCGA) .
Normal distribution across the dataset is visualized with box plots, shown as median and 25th and 75th percentiles. Points are displayed as outliers if they are above or below 1.5 times the interquartile range. FPKM values of the individual samples are presented next to the box plot.
Average FPKM
4097.9
Number of samples
153
Samples
Sample
Description
FPKM
TCGA-06-0141-01A
62 years, male, white, dead, 313 days
14412.9
TCGA-06-0744-01A
67 years, male, white, dead, 1426 days
12460.8
TCGA-06-0743-01A
69 years, male, white, dead, 803 days
10786.1
TCGA-06-0238-01A
46 years, male, white, dead, 405 days
10624.9
TCGA-19-2620-01A
70 years, male, white, dead, 148 days
8963.8
TCGA-27-1835-01A
53 years, female, white, dead, 648 days
8776.6
TCGA-06-0132-01A
49 years, male, white, dead, 771 days
8609.4
TCGA-06-2561-01A
53 years, female, white, dead, 537 days
7930.1
TCGA-06-0749-01A
50 years, male, black or african american, dead, 82 days
7548.7
TCGA-06-0750-01A
43 years, male, white, dead, 28 days
7538.0
TCGA-26-5136-01B
78 years, female, white, dead, 577 days
7422.4
TCGA-15-0742-01A
65 years, male, white, dead, 419 days
7419.8
TCGA-26-1442-01A
43 years, male, white, alive, 953 days
7405.8
TCGA-27-1837-01A
36 years, male, white, dead, 427 days
7054.7
TCGA-19-1787-01B
49 years, male, white, dead, 385 days
6895.9
TCGA-26-5134-01A
74 years, male, white, alive, 167 days
6718.2
TCGA-06-0184-01A
63 years, male, white, dead, 2126 days
6459.1
TCGA-19-1390-01A
63 years, female, white, dead, 772 days
6401.3
TCGA-19-2625-01A
76 years, female, white, dead, 124 days
6379.1
TCGA-32-1980-01A
72 years, male, white, dead, 36 days
6302.2
TCGA-06-0882-01A
30 years, male, white, dead, 632 days
6251.2
TCGA-02-2483-01A
43 years, male, asian, alive, 466 days
6197.9
TCGA-06-0168-01A
59 years, female, white, dead, 598 days
6143.0
TCGA-27-1832-01A
59 years, female, white, dead, 300 days
6136.9
TCGA-06-1804-01A
81 years, female, white, dead, 414 days
6051.4
TCGA-06-0646-01A
61 years, male, white, dead, 175 days
5936.1
TCGA-06-0138-01A
43 years, male, white, dead, 737 days
5887.1
TCGA-27-2519-01A
48 years, male, white, dead, 550 days
5821.7
TCGA-27-1830-01A
57 years, male, white, dead, 154 days
5783.6
TCGA-14-1823-01A
58 years, female, white, dead, 543 days
5782.2
TCGA-28-1753-01A
53 years, male, white, alive, 37 days
5721.3
TCGA-12-0619-01A
60 years, male, white, dead, 1062 days
5669.9
TCGA-15-1444-01A
21 years, male, white, dead, 1537 days
5633.5
TCGA-02-0047-01A
78 years, male, white, dead, 448 days
5621.5
TCGA-32-1970-01A
59 years, male, white, dead, 468 days
5585.3
TCGA-41-4097-01A
63 years, female, white, dead, 6 days
5524.7
TCGA-06-2570-01A
21 years, female, white, alive, 958 days
5368.8
TCGA-32-1982-01A
76 years, female, white, dead, 142 days
5339.5
TCGA-12-0616-01A
36 years, female, white, dead, 448 days
5317.7
TCGA-26-5132-01A
74 years, male, white, alive, 286 days
5248.7
TCGA-06-0219-01A
67 years, male, white, dead, 22 days
5166.1
TCGA-26-5135-01A
72 years, female, white, dead, 270 days
5076.4
TCGA-14-0871-01A
75 years, female, white, dead, 880 days
5073.4
TCGA-27-1834-01A
56 years, male, white, dead, 1233 days
5015.7
TCGA-06-0686-01A
53 years, male, white, dead, 432 days
4964.5
TCGA-06-2562-01A
81 years, male, white, dead, 382 days
4949.0
TCGA-06-0178-01A
39 years, male, white, dead, 2681 days
4947.8
TCGA-06-0129-01A
30 years, male, asian, dead, 1024 days
4900.8
TCGA-19-4065-01A
36 years, male, white, alive, 214 days
4870.9
TCGA-27-2528-01A
62 years, male, white, dead, 480 days
4843.4
TCGA-16-0846-01A
85 years, male, white, dead, 119 days
4789.3
TCGA-06-0649-01B
73 years, female, black or african american, dead, 64 days
4712.4
TCGA-06-0156-01A
57 years, male, white, dead, 178 days
4672.2
TCGA-06-2557-01A
76 years, male, black or african american, dead, 33 days
4653.7
TCGA-32-2632-01A
80 years, male, white, dead, 269 days
4635.7
TCGA-06-2558-01A
75 years, female, white, dead, 380 days
4581.4
TCGA-14-0781-01B
49 years, male, black or african american, dead, 29 days
4540.4
TCGA-06-0210-01A
72 years, female, white, dead, 225 days
4527.6
TCGA-06-0157-01A
63 years, female, white, dead, 97 days
4511.5
TCGA-28-2499-01A
59 years, male, white, dead, 95 days
4491.5
TCGA-06-0139-01A
40 years, male, white, dead, 362 days
4438.1
TCGA-06-0645-01A
56 years, female, white, dead, 175 days
4412.0
TCGA-32-2615-01A
62 years, male, white, dead, 485 days
4381.7
TCGA-06-0878-01A
74 years, male, white, alive, 218 days
4280.4
TCGA-06-5411-01A
51 years, male, white, dead, 254 days
4239.9
TCGA-06-0158-01A
73 years, male, white, dead, 329 days
4170.3
TCGA-06-0130-01A
54 years, male, white, dead, 394 days
4149.6
TCGA-26-5133-01A
59 years, male, white, alive, 452 days
4113.1
TCGA-16-1045-01B
49 years, female, white, dead, 883 days
4084.1
TCGA-06-5416-01A
23 years, female, white, alive, 204 days
4052.5
TCGA-19-2624-01A
51 years, male, white, dead, 5 days
3972.6
TCGA-06-0125-01A
63 years, female, white, dead, 1448 days
3945.0
TCGA-32-2634-01A
82 years, male, white, alive, 693 days
3939.9
TCGA-28-2513-01A
69 years, female, white, alive, 222 days
3928.9
TCGA-76-4926-01B
68 years, male, white, dead, 138 days
3925.6
TCGA-32-2616-01A
48 years, female, white, dead, 224 days
3919.3
TCGA-41-2571-01A
89 years, male, white, dead, 26 days
3902.8
TCGA-14-0787-01A
69 years, male, asian, dead, 68 days
3870.7
TCGA-41-2572-01A
67 years, male, white, dead, 406 days
3835.5
TCGA-19-2619-01A
55 years, female, black or african american, alive, 294 days
3823.3
TCGA-08-0386-01A
74 years, male, white, dead, 548 days
3767.7
TCGA-06-0187-01A
69 years, male, white, dead, 828 days
3618.7
TCGA-14-1825-01A
70 years, male, white, dead, 232 days
3536.0
TCGA-06-2563-01A
72 years, female, white, alive, 932 days
3516.6
TCGA-06-0745-01A
59 years, male, white, dead, 239 days
3516.6
TCGA-76-4929-01A
76 years, female, white, dead, 111 days
3455.3
TCGA-14-0817-01A
69 years, female, white, dead, 164 days
3443.5
TCGA-06-0190-01A
62 years, male, white, dead, 317 days
3439.1
TCGA-14-0790-01B
64 years, female, white, dead, 419 days
3411.7
TCGA-06-2564-01A
50 years, male, white, alive, 181 days
3332.3
TCGA-28-1747-01C
44 years, male, white, dead, 77 days
3317.4
TCGA-32-2638-01A
67 years, male, white, dead, 766 days
3312.9
TCGA-06-0747-01A
53 years, male, white, dead, 82 days
3289.5
TCGA-26-5139-01A
65 years, female, white, alive, 48 days
3278.4
TCGA-28-2514-01A
45 years, male, asian, alive, 160 days
3277.0
TCGA-14-0789-01A
54 years, male, white, dead, 342 days
3177.9
TCGA-06-2567-01A
65 years, male, white, dead, 133 days
3103.7
TCGA-06-5858-01A
45 years, female, white, alive, 187 days
3071.9
TCGA-27-2521-01A
34 years, male, white, dead, 510 days
3047.7
TCGA-06-2565-01A
59 years, male, asian, dead, 506 days
3016.7
TCGA-19-2629-01A
60 years, male, white, dead, 737 days
2959.3
TCGA-06-5412-01A
78 years, female, white, dead, 138 days
2882.0
TCGA-32-4213-01A
47 years, female, white, alive, 604 days
2837.5
TCGA-41-3915-01A
48 years, male, white, dead, 360 days
2818.8
TCGA-12-0821-01A
62 years, male, white, dead, 323 days
2795.1
TCGA-06-5418-01A
75 years, female, white, dead, 83 days
2788.7
TCGA-28-5218-01A
63 years, male, white, dead, 157 days
2606.3
TCGA-76-4928-01B
85 years, female, white, dead, 94 days
2595.2
TCGA-12-0618-01A
49 years, male, white, dead, 395 days
2579.8
TCGA-27-2524-01A
56 years, male, white, dead, 231 days
2578.0
TCGA-14-2554-01A
52 years, female, white, dead, 532 days
2528.4
TCGA-76-4927-01A
58 years, male, white, dead, 535 days
2502.5
TCGA-14-1034-01A
60 years, female, dead, 485 days
2458.1
TCGA-06-5410-01A
72 years, female, white, dead, 108 days
2433.5
TCGA-06-0211-01B
47 years, male, white, dead, 360 days
2384.3
TCGA-76-4925-01A
76 years, male, white, dead, 146 days
2314.3
TCGA-06-2559-01A
83 years, male, white, dead, 150 days
2297.8
TCGA-12-1597-01B
62 years, female, white, dead, 675 days
2268.4
TCGA-28-5215-01A
62 years, female, white, dead, 335 days
2252.1
TCGA-28-5207-01A
71 years, male, white, dead, 343 days
2241.8
TCGA-28-2509-01A
77 years, female, white, alive, 145 days
2215.8
TCGA-27-1831-01A
66 years, male, white, dead, 505 days
2200.0
TCGA-02-0055-01A
62 years, female, white, dead, 76 days
2131.2
TCGA-06-0644-01A
71 years, male, black or african american, dead, 384 days
2094.2
TCGA-28-5216-01A
52 years, male, white, alive, 415 days
2092.5
TCGA-27-2526-01A
79 years, female, white, dead, 87 days
2060.4
TCGA-06-5414-01A
61 years, male, white, alive, 273 days
2052.4
TCGA-28-5220-01A
67 years, male, white, dead, 388 days
2022.0
TCGA-19-5960-01A
56 years, male, white, dead, 455 days
1951.7
TCGA-06-2569-01A
24 years, female, black or african american, alive, 13 days
1941.4
TCGA-06-0174-01A
54 years, male, white, dead, 98 days
1887.7
TCGA-76-4931-01A
70 years, female, white, dead, 279 days
1885.7
TCGA-76-4932-01A
50 years, female, white, dead, 1458 days
1757.4
TCGA-06-5417-01A
45 years, female, white, alive, 155 days
1737.6
TCGA-06-5856-01A
58 years, male, white, dead, 114 days
1706.2
TCGA-14-1829-01A
57 years, male, black or african american, alive, 218 days
1638.4
TCGA-28-5209-01A
66 years, female, white, alive, 77 days
1589.1
TCGA-02-2485-01A
53 years, male, black or african american, alive, 470 days
1585.0
TCGA-27-2523-01A
63 years, male, white, dead, 489 days
1428.1
TCGA-06-5413-01A
67 years, male, white, alive, 268 days
1415.7
TCGA-12-3650-01A
46 years, male, white, dead, 333 days
1411.5
TCGA-41-5651-01A
59 years, female, black or african american, dead, 460 days
1190.8
TCGA-06-5408-01A
54 years, female, white, dead, 357 days
1173.9
TCGA-02-2486-01A
64 years, male, white, dead, 618 days
1153.0
TCGA-06-5859-01A
63 years, male, white, alive, 139 days
1096.4
TCGA-12-3653-01A
34 years, female, white, dead, 442 days
1088.2
TCGA-28-5208-01A
52 years, male, white, dead, 544 days
1014.4
TCGA-12-5295-01A
60 years, female, white, dead, 454 days
1007.7
TCGA-12-5299-01A
56 years, female, white, dead, 98 days
975.4
TCGA-32-5222-01A
66 years, male, white, dead, 585 days
818.4
TCGA-12-3652-01A
60 years, male, white, dead, 1062 days
750.3
TCGA-28-5213-01A
72 years, male, white, alive, 951 days
726.1
TCGA-28-5204-01A
72 years, male, white, dead, 454 days
698.4
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GLIOMA - Protein expressioni
A mouse-over function shows sample information and annotation data. Click on an image to view it in a full screen mode. Samples can be filtered based on level of antibody staining by selecting one or several of the following categories: high, medium, low and not detected. The assay and annotation is described here.
Note that samples used for immunohistochemistry by the Human Protein Atlas do not correspond to samples in the TCGA dataset.