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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.
MT-ND1 is not prognostic in glioma
Stage:
Survival analysis
Current cut offi
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 average 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
2643.2
Number of samples
153
Samples
Sample
Description
FPKM
TCGA-06-0141-01A
62 years, male, white, dead, 313 days
10262.1
TCGA-06-0744-01A
67 years, male, white, dead, 1426 days
9468.2
TCGA-06-2561-01A
53 years, female, white, dead, 537 days
7120.8
TCGA-27-2519-01A
48 years, male, white, dead, 550 days
7103.2
TCGA-27-1835-01A
53 years, female, white, dead, 648 days
6524.4
TCGA-15-0742-01A
65 years, male, white, dead, 419 days
6381.6
TCGA-06-0132-01A
49 years, male, white, dead, 771 days
6361.4
TCGA-06-0743-01A
69 years, male, white, dead, 803 days
6339.2
TCGA-06-0649-01B
73 years, female, black or african american, dead, 64 days
5792.3
TCGA-06-0238-01A
46 years, male, white, dead, 405 days
5530.8
TCGA-19-1787-01B
49 years, male, white, dead, 385 days
5261.4
TCGA-27-1837-01A
36 years, male, white, dead, 427 days
5233.3
TCGA-26-1442-01A
43 years, male, white, alive, 953 days
5015.8
TCGA-06-0750-01A
43 years, male, white, dead, 28 days
4936.7
TCGA-27-1834-01A
56 years, male, white, dead, 1233 days
4870.1
TCGA-06-0184-01A
63 years, male, white, dead, 2126 days
4825.7
TCGA-16-0846-01A
85 years, male, white, dead, 119 days
4798.7
TCGA-14-0871-01A
75 years, female, white, dead, 880 days
4583.5
TCGA-19-2625-01A
76 years, female, white, dead, 124 days
4579.3
TCGA-32-2616-01A
48 years, female, white, dead, 224 days
4538.5
TCGA-32-1980-01A
72 years, male, white, dead, 36 days
4472.4
TCGA-19-2620-01A
70 years, male, white, dead, 148 days
4470.6
TCGA-06-0219-01A
67 years, male, white, dead, 22 days
4452.5
TCGA-06-0168-01A
59 years, female, white, dead, 598 days
4394.3
TCGA-14-1823-01A
58 years, female, white, dead, 543 days
4368.1
TCGA-06-0138-01A
43 years, male, white, dead, 737 days
4293.4
TCGA-06-0882-01A
30 years, male, white, dead, 632 days
4168.4
TCGA-27-1830-01A
57 years, male, white, dead, 154 days
4149.3
TCGA-06-0210-01A
72 years, female, white, dead, 225 days
3946.9
TCGA-06-1804-01A
81 years, female, white, dead, 414 days
3928.0
TCGA-12-0619-01A
60 years, male, white, dead, 1062 days
3919.4
TCGA-02-0047-01A
78 years, male, white, dead, 448 days
3810.4
TCGA-06-0156-01A
57 years, male, white, dead, 178 days
3787.1
TCGA-26-5136-01B
78 years, female, white, dead, 577 days
3748.1
TCGA-06-2557-01A
76 years, male, black or african american, dead, 33 days
3721.2
TCGA-16-1045-01B
49 years, female, white, dead, 883 days
3713.9
TCGA-06-0686-01A
53 years, male, white, dead, 432 days
3662.6
TCGA-06-0749-01A
50 years, male, black or african american, dead, 82 days
3647.4
TCGA-06-2558-01A
75 years, female, white, dead, 380 days
3557.0
TCGA-32-1982-01A
76 years, female, white, dead, 142 days
3499.5
TCGA-26-5132-01A
74 years, male, white, alive, 286 days
3439.6
TCGA-06-5411-01A
51 years, male, white, dead, 254 days
3387.4
TCGA-41-4097-01A
63 years, female, white, dead, 6 days
3326.4
TCGA-06-2570-01A
21 years, female, white, alive, 958 days
3226.6
TCGA-28-2513-01A
69 years, female, white, alive, 222 days
3207.0
TCGA-41-2571-01A
89 years, male, white, dead, 26 days
3140.9
TCGA-06-0157-01A
63 years, female, white, dead, 97 days
3093.7
TCGA-12-0616-01A
36 years, female, white, dead, 448 days
3019.7
TCGA-32-2634-01A
82 years, male, white, alive, 693 days
2961.6
TCGA-28-1753-01A
53 years, male, white, alive, 37 days
2937.2
TCGA-06-0645-01A
56 years, female, white, dead, 175 days
2894.0
TCGA-06-0178-01A
39 years, male, white, dead, 2681 days
2850.2
TCGA-19-2624-01A
51 years, male, white, dead, 5 days
2842.3
TCGA-06-0139-01A
40 years, male, white, dead, 362 days
2837.6
TCGA-41-2572-01A
67 years, male, white, dead, 406 days
2836.5
TCGA-26-5135-01A
72 years, female, white, dead, 270 days
2808.5
TCGA-06-0187-01A
69 years, male, white, dead, 828 days
2769.0
TCGA-06-2562-01A
81 years, male, white, dead, 382 days
2763.0
TCGA-26-5134-01A
74 years, male, white, alive, 167 days
2736.6
TCGA-28-2499-01A
59 years, male, white, dead, 95 days
2714.8
TCGA-14-0787-01A
69 years, male, asian, dead, 68 days
2677.1
TCGA-28-1747-01C
44 years, male, white, dead, 77 days
2665.6
TCGA-27-2528-01A
62 years, male, white, dead, 480 days
2634.9
TCGA-06-0646-01A
61 years, male, white, dead, 175 days
2634.4
TCGA-32-2615-01A
62 years, male, white, dead, 485 days
2598.9
TCGA-14-0817-01A
69 years, female, white, dead, 164 days
2560.4
TCGA-76-4929-01A
76 years, female, white, dead, 111 days
2531.5
TCGA-06-2569-01A
24 years, female, black or african american, alive, 13 days
2518.0
TCGA-32-1970-01A
59 years, male, white, dead, 468 days
2512.6
TCGA-26-5133-01A
59 years, male, white, alive, 452 days
2476.0
TCGA-06-0158-01A
73 years, male, white, dead, 329 days
2470.0
TCGA-76-4926-01B
68 years, male, white, dead, 138 days
2357.2
TCGA-32-2632-01A
80 years, male, white, dead, 269 days
2353.6
TCGA-06-0125-01A
63 years, female, white, dead, 1448 days
2341.5
TCGA-06-2564-01A
50 years, male, white, alive, 181 days
2302.6
TCGA-06-0745-01A
59 years, male, white, dead, 239 days
2301.6
TCGA-02-2483-01A
43 years, male, asian, alive, 466 days
2300.8
TCGA-14-0790-01B
64 years, female, white, dead, 419 days
2242.0
TCGA-06-0130-01A
54 years, male, white, dead, 394 days
2166.7
TCGA-12-0618-01A
49 years, male, white, dead, 395 days
2129.8
TCGA-06-0747-01A
53 years, male, white, dead, 82 days
2128.8
TCGA-28-2514-01A
45 years, male, asian, alive, 160 days
2115.9
TCGA-06-0878-01A
74 years, male, white, alive, 218 days
2098.5
TCGA-12-0821-01A
62 years, male, white, dead, 323 days
2063.1
TCGA-19-2629-01A
60 years, male, white, dead, 737 days
2062.1
TCGA-15-1444-01A
21 years, male, white, dead, 1537 days
2057.1
TCGA-19-1390-01A
63 years, female, white, dead, 772 days
2038.7
TCGA-27-2524-01A
56 years, male, white, dead, 231 days
1946.5
TCGA-06-5418-01A
75 years, female, white, dead, 83 days
1930.7
TCGA-27-1832-01A
59 years, female, white, dead, 300 days
1901.2
TCGA-08-0386-01A
74 years, male, white, dead, 548 days
1873.4
TCGA-41-3915-01A
48 years, male, white, dead, 360 days
1864.6
TCGA-06-0129-01A
30 years, male, asian, dead, 1024 days
1862.8
TCGA-06-5416-01A
23 years, female, white, alive, 204 days
1859.3
TCGA-19-4065-01A
36 years, male, white, alive, 214 days
1837.9
TCGA-06-5410-01A
72 years, female, white, dead, 108 days
1831.0
TCGA-14-0781-01B
49 years, male, black or african american, dead, 29 days
1811.0
TCGA-26-5139-01A
65 years, female, white, alive, 48 days
1752.0
TCGA-12-1597-01B
62 years, female, white, dead, 675 days
1736.1
TCGA-19-2619-01A
55 years, female, black or african american, alive, 294 days
1729.4
TCGA-06-2559-01A
83 years, male, white, dead, 150 days
1729.3
TCGA-32-4213-01A
47 years, female, white, alive, 604 days
1719.8
TCGA-32-2638-01A
67 years, male, white, dead, 766 days
1718.0
TCGA-06-2565-01A
59 years, male, asian, dead, 506 days
1698.7
TCGA-06-0190-01A
62 years, male, white, dead, 317 days
1668.6
TCGA-14-1825-01A
70 years, male, white, dead, 232 days
1628.4
TCGA-14-0789-01A
54 years, male, white, dead, 342 days
1624.2
TCGA-76-4925-01A
76 years, male, white, dead, 146 days
1609.3
TCGA-14-2554-01A
52 years, female, white, dead, 532 days
1604.4
TCGA-06-2567-01A
65 years, male, white, dead, 133 days
1600.7
TCGA-06-5858-01A
45 years, female, white, alive, 187 days
1539.3
TCGA-27-2521-01A
34 years, male, white, dead, 510 days
1531.0
TCGA-06-2563-01A
72 years, female, white, alive, 932 days
1514.2
TCGA-14-1829-01A
57 years, male, black or african american, alive, 218 days
1476.3
TCGA-28-5220-01A
67 years, male, white, dead, 388 days
1333.2
TCGA-28-5216-01A
52 years, male, white, alive, 415 days
1326.6
TCGA-28-5207-01A
71 years, male, white, dead, 343 days
1295.1
TCGA-06-0644-01A
71 years, male, black or african american, dead, 384 days
1286.7
TCGA-06-0211-01B
47 years, male, white, dead, 360 days
1261.1
TCGA-06-0174-01A
54 years, male, white, dead, 98 days
1246.1
TCGA-76-4928-01B
85 years, female, white, dead, 94 days
1243.5
TCGA-76-4931-01A
70 years, female, white, dead, 279 days
1238.7
TCGA-27-2526-01A
79 years, female, white, dead, 87 days
1233.1
TCGA-28-5218-01A
63 years, male, white, dead, 157 days
1200.4
TCGA-06-5412-01A
78 years, female, white, dead, 138 days
1180.7
TCGA-14-1034-01A
60 years, female, dead, 485 days
1176.5
TCGA-28-5215-01A
62 years, female, white, dead, 335 days
1157.7
TCGA-28-5209-01A
66 years, female, white, alive, 77 days
1154.8
TCGA-41-5651-01A
59 years, female, black or african american, dead, 460 days
1121.2
TCGA-27-1831-01A
66 years, male, white, dead, 505 days
1120.9
TCGA-06-5414-01A
61 years, male, white, alive, 273 days
1090.7
TCGA-28-2509-01A
77 years, female, white, alive, 145 days
1045.7
TCGA-76-4927-01A
58 years, male, white, dead, 535 days
935.1
TCGA-02-0055-01A
62 years, female, white, dead, 76 days
930.6
TCGA-76-4932-01A
50 years, female, white, dead, 1458 days
916.7
TCGA-02-2486-01A
64 years, male, white, dead, 618 days
854.6
TCGA-19-5960-01A
56 years, male, white, dead, 455 days
832.8
TCGA-02-2485-01A
53 years, male, black or african american, alive, 470 days
803.0
TCGA-12-3650-01A
46 years, male, white, dead, 333 days
765.5
TCGA-06-5417-01A
45 years, female, white, alive, 155 days
759.7
TCGA-27-2523-01A
63 years, male, white, dead, 489 days
750.7
TCGA-12-5299-01A
56 years, female, white, dead, 98 days
717.3
TCGA-06-5413-01A
67 years, male, white, alive, 268 days
646.5
TCGA-06-5859-01A
63 years, male, white, alive, 139 days
641.5
TCGA-28-5204-01A
72 years, male, white, dead, 454 days
576.2
TCGA-06-5856-01A
58 years, male, white, dead, 114 days
558.4
TCGA-12-5295-01A
60 years, female, white, dead, 454 days
555.1
TCGA-12-3653-01A
34 years, female, white, dead, 442 days
474.3
TCGA-06-5408-01A
54 years, female, white, dead, 357 days
473.9
TCGA-12-3652-01A
60 years, male, white, dead, 1062 days
450.2
TCGA-28-5213-01A
72 years, male, white, alive, 951 days
441.4
TCGA-28-5208-01A
52 years, male, white, dead, 544 days
336.7
TCGA-32-5222-01A
66 years, male, white, dead, 585 days
313.3
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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.
Antibody stainingi
Antibody staining in the annotated cell types in the current human tissue is reported as not detected, low, medium, or high, based on conventional immunohistochemistry profiling in selected tissues. This score is based on the combination of the staining intensity and fraction of stained cells.
Each image is clickable and will lead to virtual microscopy that enables deeper exploration of all samples and also displays staining intensity scores, fraction scores and subcellular localization as well as patient and tissue information for each sample.
The Human Protein Atlas project is funded
