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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 5-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 5-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
11.8
Number of samples
159
Samples
Sample
Description
FPKM
TCGA-AG-A02G-01A
66 years, male, stage:iv, dead, 1185 days
60.3
TCGA-AG-3728-01A
73 years, male, stage:iiib, alive, 912 days
50.0
TCGA-AF-3913-01A
60 years, male, black or african american, stage:iv, dead, 316 days
44.7
TCGA-AG-3882-01A
66 years, female, stage:i, alive, 608 days
35.5
TCGA-DY-A1DG-01A
75 years, male, white, stage:iva, dead, 1566 days
34.3
TCGA-DY-A1DF-01A
73 years, female, white, stage:iiic, dead, 734 days
34.1
TCGA-AG-3890-01A
62 years, male, stage:i, alive, 518 days
33.7
TCGA-AG-3611-01A
72 years, male, stage:iia, alive, 424 days
30.4
TCGA-AF-6672-01A
43 years, male, white, stage:iv, alive, 748 days
28.5
TCGA-AG-3893-01A
74 years, male, stage:iiib, alive, 1065 days
27.2
TCGA-AG-3909-01A
69 years, female, stage:iiib, alive, 608 days
25.1
TCGA-AG-4001-01A
74 years, female, stage:iia, alive, 1096 days
23.6
TCGA-AG-3725-01A
90 years, female, stage:iii, alive, 638 days
23.1
TCGA-F5-6812-01A
67 years, male, white, stage:iia, alive, 1110 days
22.7
TCGA-DY-A1DD-01A
77 years, female, white, stage:iiib, dead, 1741 days
22.1
TCGA-AG-3578-01A
76 years, female, stage:iia, alive, 974 days
21.3
TCGA-F5-6863-01A
71 years, female, white, stage:iiib, dead, 361 days
21.0
TCGA-DY-A1H8-01A
77 years, female, white, stage:iiia, dead, 992 days
20.5
TCGA-G5-6641-01A
67 years, male, white, stage:iiia, alive, 804 days
19.9
TCGA-AG-A01J-01A
59 years, female, stage:iia, alive, 31 days
19.7
TCGA-AG-A032-01A
68 years, male, stage:iiib, alive, 1157 days
19.6
TCGA-AG-3881-01A
83 years, female, stage:iia, alive, 579 days
19.1
TCGA-AG-3999-01A
61 years, female, stage:iiic, alive, 853 days
19.1
TCGA-DC-6154-01A
57 years, female, white, stage:iva, alive, 365 days
18.7
TCGA-AF-2691-01A
48 years, female, white, stage:i, alive, 1309 days
17.7
TCGA-AG-A01N-01A
68 years, female, stage:iv, alive, 943 days
17.7
TCGA-AG-3575-01A
51 years, male, stage:ii, alive, 365 days
17.3
TCGA-F5-6571-01A
62 years, female, white, stage:iia, alive, 1288 days
17.2
TCGA-AG-A011-01A
80 years, male, stage:iia, alive, 1126 days
16.6
TCGA-F5-6702-01A
71 years, male, white, stage:iva, alive, 869 days
16.3
TCGA-AF-3400-01A
54 years, male, white, stage:iia, alive, 1049 days
16.2
TCGA-AG-3878-01A
64 years, male, stage:i, alive, 30 days
16.2
TCGA-AG-3581-01A
63 years, male, stage:i, alive, 215 days
16.0
TCGA-AG-3582-01A
75 years, male, stage:iv, dead, 1096 days
15.6
TCGA-AG-3612-01A
55 years, female, stage:iiib, alive, 608 days
15.6
TCGA-AG-3883-01A
69 years, male, stage:i, alive, 31 days
15.0
TCGA-DC-6156-01A
62 years, male, white, stage:iva, alive, 943 days
14.8
TCGA-DT-5265-01A
51 years, male, asian, stage:ii, alive, 384 days
14.7
TCGA-AG-4008-01A
63 years, male, stage:iia, alive, 518 days
14.6
TCGA-AG-3885-01A
71 years, female, stage:iiib, alive, 546 days
14.2
TCGA-EI-6514-01A
59 years, female, white, stage:iia, alive, 496 days
14.2
TCGA-AG-4022-01A
59 years, female, stage:ii, alive, 1400 days
13.8
TCGA-DY-A1DC-01A
72 years, female, white, stage:iia, dead, 1258 days
13.7
TCGA-AG-3591-01A
66 years, female, stage:iia, alive, 1035 days
13.2
TCGA-AF-A56K-01A
56 years, male, black or african american, stage:iia, alive, 2635 days
13.1
TCGA-AG-3584-01A
60 years, male, stage:iv, dead, 730 days
13.1
TCGA-AF-2690-01A
77 years, female, white, stage:iiic, dead, 524 days
13.0
TCGA-AG-A02N-01A
67 years, male, stage:ii, alive, 1885 days
13.0
TCGA-EI-6884-01A
71 years, male, white, stage:iiia, alive, 328 days
12.9
TCGA-AG-A00Y-01A
68 years, male, stage:iia, alive, 700 days
12.9
TCGA-AG-A00H-01A
75 years, male, stage:iia, alive, 790 days
12.8
TCGA-AG-3605-01A
85 years, female, stage:iv, alive, 30 days
12.7
TCGA-AG-3732-01A
78 years, female, stage:i, alive, 1003 days
12.4
TCGA-EI-6507-01A
60 years, male, white, stage:iia, alive, 607 days
12.2
TCGA-AF-3911-01A
48 years, male, white, stage:iiic, alive, 1148 days
12.1
TCGA-EF-5831-01A
72 years, male, white, stage:iia, alive, 127 days
12.0
TCGA-EI-6883-01A
63 years, male, white, stage:iic, alive, 350 days
11.9
TCGA-F5-6465-01A
64 years, female, white, stage:iia, alive, 1506 days
11.7
TCGA-DC-6683-01A
43 years, male, white, stage:iiib, alive, 762 days
11.7
TCGA-AG-4007-01A
87 years, male, stage:iv, alive, 31 days
11.7
TCGA-F5-6864-01A
74 years, female, white, stage:iiib, alive, 379 days
11.6
TCGA-DY-A0XA-01A
57 years, female, white, stage:iia, alive, 3846 days
11.5
TCGA-AG-3587-01A
65 years, male, stage:i, alive, 1400 days
11.4
TCGA-AG-3896-01A
85 years, female, stage:i, alive, 31 days
11.2
TCGA-EI-6510-01A
77 years, female, white, alive, 556 days
11.1
TCGA-CI-6624-01C
53 years, female, white, stage:i, alive, 1466 days
11.1
TCGA-F5-6464-01A
77 years, female, white, stage:iiic, dead, 303 days
11.1
TCGA-AF-4110-01A
77 years, male, white, stage:iva, alive, 912 days
10.9
TCGA-AG-3608-01A
79 years, female, stage:iia, alive, 485 days
10.9
TCGA-AG-3901-01A
67 years, female, stage:iiib, alive, 761 days
10.9
TCGA-DC-6158-01A
70 years, male, white, stage:i, dead, 334 days
10.6
TCGA-AG-A026-01A
66 years, male, stage:ii, dead, 59 days
10.3
TCGA-DC-6157-01A
48 years, male, black or african american, stage:i, alive, 1581 days
10.3
TCGA-EI-6885-01A
57 years, female, white, stage:iv, alive, 415 days
10.2
TCGA-AG-3609-01A
65 years, female, stage:iiic, alive, 608 days
10.2
TCGA-AG-3902-01A
61 years, male, stage:iia, alive, 974 days
10.1
TCGA-AF-2687-01A
57 years, male, white, stage:iiic, alive, 1427 days
10.1
TCGA-AG-A036-01A
71 years, male, stage:iii, alive, 3562 days
9.8
TCGA-CL-5918-01A
90 years, female, white, stage:iia, alive, 218 days
9.7
TCGA-AG-3887-01A
68 years, male, stage:iia, alive, 1124 days
9.7
TCGA-AG-3894-01A
65 years, male, stage:iia, alive, 426 days
9.4
TCGA-EI-7002-01A
58 years, male, white, stage:iv, alive, 364 days
9.2
TCGA-AG-3892-01A
57 years, female, stage:i, alive, 396 days
9.2
TCGA-AG-A025-01A
62 years, female, stage:i, alive, 1520 days
9.1
TCGA-EI-6881-01A
60 years, male, white, stage:iiia, alive, 499 days
8.9
TCGA-AH-6547-01A
79 years, female, white, dead, 76 days
8.9
TCGA-AG-3727-01A
78 years, female, stage:iii, alive, 30 days
8.7
TCGA-G5-6572-01A
56 years, male, white, dead, 1432 days
8.7
TCGA-DC-6681-01A
70 years, female, white, stage:iva, alive, 790 days
8.6
TCGA-DY-A1DE-01A
56 years, female, white, stage:iia, alive, 3932 days
8.4
TCGA-EI-7004-01A
37 years, female, white, alive, 257 days
8.3
TCGA-AF-6136-01A
72 years, female, white, stage:iiib, alive, 741 days
8.1
TCGA-AG-A00C-01A
49 years, female, stage:iiib, alive, 183 days
8.1
TCGA-CI-6619-01B
41 years, male, white, stage:iv, alive, 184 days
7.9
TCGA-AF-A56L-01A
48 years, female, black or african american, stage:iiic, alive, 2007 days
7.9
TCGA-AG-A002-01A
35 years, male, stage:i, alive, 638 days
7.9
TCGA-CL-5917-01A
71 years, female, white, stage:iiic, alive, 2376 days
7.7
TCGA-AG-3593-01A
72 years, female, stage:iia, alive, 1035 days
7.6
TCGA-AG-3594-01A
77 years, male, stage:iia, dead, 61 days
7.6
TCGA-AH-6644-01A
73 years, male, white, alive, 838 days
7.5
TCGA-AG-A023-01A
62 years, female, stage:iv, dead, 1581 days
7.5
TCGA-AH-6643-01A
50 years, male, white, stage:iiic, dead, 1314 days
7.5
TCGA-AG-A02X-01A
77 years, male, stage:i, alive, 1247 days
7.2
TCGA-AG-3599-01A
70 years, male, stage:i, alive, 366 days
7.2
TCGA-F5-6811-01A
72 years, female, white, stage:iia, alive, 979 days
7.1
TCGA-AG-A016-01A
55 years, male, stage:iv, alive, 276 days
7.0
TCGA-AG-3574-01A
89 years, female, stage:ii, dead, 1096 days
6.9
TCGA-DC-4749-01A
57 years, male, white, stage:i, alive, 762 days
6.8
TCGA-EI-6509-01A
53 years, male, white, stage:iiic, alive, 517 days
6.8
TCGA-AG-3592-01A
68 years, male, stage:iia, alive, 1035 days
6.8
TCGA-AF-A56N-01A
47 years, female, black or african american, stage:iia, alive, 360 days
6.8
TCGA-AG-A014-01A
86 years, male, stage:i, alive, 485 days
6.8
TCGA-AG-3898-01A
61 years, male, stage:iia, alive, 1461 days
6.8
TCGA-CI-6623-01B
44 years, male, white, stage:i, alive, 1443 days
6.7
TCGA-AG-3600-01A
62 years, male, stage:iiic, alive, 184 days
6.6
TCGA-AG-4005-01A
64 years, male, stage:iv, alive, 427 days
6.5
TCGA-AG-3598-01A
69 years, male, stage:iia, alive, 1522 days
6.5
TCGA-AG-3731-01A
65 years, male, stage:iv, alive, 1126 days
6.4
TCGA-EI-6882-01A
59 years, male, white, stage:iia, alive, 262 days
6.4
TCGA-EI-6513-01A
59 years, male, white, stage:iiib, alive, 497 days
6.3
TCGA-EI-6511-01A
52 years, male, white, stage:iiib, alive, 482 days
6.2
TCGA-DC-5869-01A
62 years, female, black or african american, stage:iiib, alive, 943 days
6.1
TCGA-AG-3580-01A
67 years, male, stage:i, alive, 244 days
5.9
TCGA-BM-6198-01A
73 years, male, white, stage:iiib, alive, 646 days
5.8
TCGA-EI-6506-01A
78 years, female, white, stage:iia, alive, 625 days
5.8
TCGA-DC-6155-01A
31 years, female, white, stage:iiia, alive, 425 days
5.7
TCGA-AG-3726-01A
63 years, female, stage:i, alive, 243 days
5.6
TCGA-G5-6233-01A
74 years, male, white, dead, 556 days
5.6
TCGA-EI-6508-01A
48 years, female, white, stage:iiib, alive, 636 days
5.6
TCGA-AF-6655-01A
66 years, male, white, stage:iiia, alive, 609 days
5.5
TCGA-AG-3742-01A
85 years, female, stage:i, alive, 30 days
5.5
TCGA-AF-2692-01A
54 years, female, white, stage:iia, alive, 412 days
5.5
TCGA-AG-3586-01A
72 years, female, stage:iii, alive, 31 days
5.5
TCGA-AG-A015-01A
64 years, female, stage:i, alive, 1096 days
5.4
TCGA-AG-A020-01A
57 years, female, stage:iii, alive, 31 days
5.4
TCGA-AG-4021-01A
84 years, female, stage:iv, dead, 121 days
5.1
TCGA-DC-4745-01A
49 years, female, white, stage:iiib, alive, 639 days
5.1
TCGA-CI-6621-01A
63 years, male, white, stage:iiib, alive, 419 days
5.0
TCGA-F5-6861-01A
60 years, female, white, stage:iia, alive, 1160 days
4.9
TCGA-CI-6620-01A
41 years, female, white, stage:iva, alive, 1009 days
4.7
TCGA-EI-6512-01A
64 years, female, white, stage:iiib, alive, 538 days
4.7
TCGA-EI-6917-01A
33 years, male, white, stage:iiia, alive, 531 days
4.6
TCGA-AG-A008-01A
50 years, female, stage:i, alive, 424 days
4.6
TCGA-G5-6235-01A
72 years, male, white, stage:iiib, alive, 1696 days
4.5
TCGA-AF-2693-01A
75 years, male, white, stage:i, alive, 1155 days
4.4
TCGA-EF-5830-01A
54 years, male, white, stage:iib, alive, 106 days
4.4
TCGA-AH-6903-01A
46 years, male, white, stage:iiib, alive, 592 days
4.4
TCGA-AH-6549-01A
66 years, male, white, alive, 532 days
4.3
TCGA-F5-6813-01A
70 years, male, white, stage:iiic, dead, 598 days
4.2
TCGA-F5-6814-01A
57 years, male, white, stage:iia, alive, 1131 days
3.8
TCGA-AH-6544-01A
60 years, male, white, alive, 1173 days
3.6
TCGA-AG-3583-01A
66 years, male, stage:iv, dead, 610 days
3.5
TCGA-CI-6622-01A
74 years, male, white, stage:iib, alive, 1362 days
The Human Protein Atlas project is funded
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