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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
201.1
Number of samples
159
Samples
Sample
Description
FPKM
TCGA-AG-3605-01A
85 years, female, stage:iv, alive, 30 days
375.4
TCGA-EI-6883-01A
63 years, male, white, stage:iic, alive, 350 days
368.3
TCGA-AG-3609-01A
65 years, female, stage:iiic, alive, 608 days
347.8
TCGA-DC-4745-01A
49 years, female, white, stage:iiib, alive, 639 days
342.2
TCGA-DC-6682-01A
57 years, male, white, stage:iia, alive, 762 days
318.6
TCGA-AF-4110-01A
77 years, male, white, stage:iva, alive, 912 days
316.9
TCGA-AG-3583-01A
66 years, male, stage:iv, dead, 610 days
315.2
TCGA-AG-3591-01A
66 years, female, stage:iia, alive, 1035 days
314.5
TCGA-AG-3598-01A
69 years, male, stage:iia, alive, 1522 days
307.6
TCGA-DC-5337-01A
69 years, male, white, stage:i, alive, 792 days
297.7
TCGA-AG-3575-01A
51 years, male, stage:ii, alive, 365 days
297.1
TCGA-AH-6903-01A
46 years, male, white, stage:iiib, alive, 592 days
291.7
TCGA-CI-6621-01A
63 years, male, white, stage:iiib, alive, 419 days
290.0
TCGA-EF-5830-01A
54 years, male, white, stage:iib, alive, 106 days
288.3
TCGA-AF-2693-01A
75 years, male, white, stage:i, alive, 1155 days
288.1
TCGA-DC-5869-01A
62 years, female, black or african american, stage:iiib, alive, 943 days
286.8
TCGA-AF-5654-01A
73 years, female, white, stage:i, dead, 512 days
285.1
TCGA-DC-6160-01A
68 years, male, white, stage:i, alive, 1339 days
282.5
TCGA-EI-7002-01A
58 years, male, white, stage:iv, alive, 364 days
281.4
TCGA-AH-6644-01A
73 years, male, white, alive, 838 days
281.0
TCGA-AG-3574-01A
89 years, female, stage:ii, dead, 1096 days
277.3
TCGA-G5-6572-01A
56 years, male, white, dead, 1432 days
275.9
TCGA-AH-6643-01A
50 years, male, white, stage:iiic, dead, 1314 days
267.5
TCGA-AG-3887-01A
68 years, male, stage:iia, alive, 1124 days
266.8
TCGA-AG-3894-01A
65 years, male, stage:iia, alive, 426 days
266.3
TCGA-DC-6683-01A
43 years, male, white, stage:iiib, alive, 762 days
263.1
TCGA-EF-5831-01A
72 years, male, white, stage:iia, alive, 127 days
262.5
TCGA-EI-6509-01A
53 years, male, white, stage:iiic, alive, 517 days
262.3
TCGA-F5-6814-01A
57 years, male, white, stage:iia, alive, 1131 days
259.3
TCGA-AG-3611-01A
72 years, male, stage:iia, alive, 424 days
258.8
TCGA-AG-A008-01A
50 years, female, stage:i, alive, 424 days
256.3
TCGA-AG-3608-01A
79 years, female, stage:iia, alive, 485 days
255.5
TCGA-F5-6861-01A
60 years, female, white, stage:iia, alive, 1160 days
253.4
TCGA-DC-6681-01A
70 years, female, white, stage:iva, alive, 790 days
250.0
TCGA-CI-6622-01A
74 years, male, white, stage:iib, alive, 1362 days
249.1
TCGA-AG-3600-01A
62 years, male, stage:iiic, alive, 184 days
245.7
TCGA-AG-3580-01A
67 years, male, stage:i, alive, 244 days
245.3
TCGA-EI-6881-01A
60 years, male, white, stage:iiia, alive, 499 days
243.9
TCGA-EI-6917-01A
33 years, male, white, stage:iiia, alive, 531 days
243.3
TCGA-F5-6571-01A
62 years, female, white, stage:iia, alive, 1288 days
242.1
TCGA-AH-6544-01A
60 years, male, white, alive, 1173 days
237.4
TCGA-AH-6897-01A
48 years, male, white, stage:i, alive, 804 days
237.4
TCGA-DC-4749-01A
57 years, male, white, stage:i, alive, 762 days
237.2
TCGA-AG-3742-01A
85 years, female, stage:i, alive, 30 days
234.1
TCGA-DC-6154-01A
57 years, female, white, stage:iva, alive, 365 days
233.8
TCGA-EI-6514-01A
59 years, female, white, stage:iia, alive, 496 days
233.7
TCGA-AF-A56L-01A
48 years, female, black or african american, stage:iiic, alive, 2007 days
232.4
TCGA-AF-6655-01A
66 years, male, white, stage:iiia, alive, 609 days
231.5
TCGA-AG-3586-01A
72 years, female, stage:iii, alive, 31 days
230.7
TCGA-AG-4022-01A
59 years, female, stage:ii, alive, 1400 days
229.4
TCGA-CL-4957-01A
79 years, female, dead, 425 days
229.2
TCGA-DY-A1DC-01A
72 years, female, white, stage:iia, dead, 1258 days
229.2
TCGA-AF-A56N-01A
47 years, female, black or african american, stage:iia, alive, 360 days
229.1
TCGA-AG-3599-01A
70 years, male, stage:i, alive, 366 days
227.9
TCGA-DY-A0XA-01A
57 years, female, white, stage:iia, alive, 3846 days
226.6
TCGA-AH-6549-01A
66 years, male, white, alive, 532 days
226.3
TCGA-AG-3581-01A
63 years, male, stage:i, alive, 215 days
224.5
TCGA-G5-6233-01A
74 years, male, white, dead, 556 days
224.0
TCGA-F5-6813-01A
70 years, male, white, stage:iiic, dead, 598 days
223.1
TCGA-AG-3582-01A
75 years, male, stage:iv, dead, 1096 days
222.7
TCGA-DY-A1H8-01A
77 years, female, white, stage:iiia, dead, 992 days
220.5
TCGA-AG-4005-01A
64 years, male, stage:iv, alive, 427 days
219.7
TCGA-AG-3902-01A
61 years, male, stage:iia, alive, 974 days
217.8
TCGA-EI-6511-01A
52 years, male, white, stage:iiib, alive, 482 days
217.2
TCGA-AG-3892-01A
57 years, female, stage:i, alive, 396 days
216.3
TCGA-EI-6884-01A
71 years, male, white, stage:iiia, alive, 328 days
216.1
TCGA-AG-3612-01A
55 years, female, stage:iiib, alive, 608 days
214.8
TCGA-CL-5918-01A
90 years, female, white, stage:iia, alive, 218 days
214.6
TCGA-CL-5917-01A
71 years, female, white, stage:iiic, alive, 2376 days
213.2
TCGA-EI-6512-01A
64 years, female, white, stage:iiib, alive, 538 days
213.2
TCGA-DT-5265-01A
51 years, male, asian, stage:ii, alive, 384 days
209.3
TCGA-F5-6864-01A
74 years, female, white, stage:iiib, alive, 379 days
208.7
TCGA-AG-A023-01A
62 years, female, stage:iv, dead, 1581 days
207.7
TCGA-EI-6510-01A
77 years, female, white, alive, 556 days
207.4
TCGA-CI-6623-01B
44 years, male, white, stage:i, alive, 1443 days
206.7
TCGA-CI-6620-01A
41 years, female, white, stage:iva, alive, 1009 days
206.5
TCGA-F5-6863-01A
71 years, female, white, stage:iiib, dead, 361 days
203.2
TCGA-AF-2691-01A
48 years, female, white, stage:i, alive, 1309 days
203.0
TCGA-AG-3901-01A
67 years, female, stage:iiib, alive, 761 days
202.0
TCGA-AG-3592-01A
68 years, male, stage:iia, alive, 1035 days
201.8
TCGA-AG-3896-01A
85 years, female, stage:i, alive, 31 days
200.9
TCGA-EI-6882-01A
59 years, male, white, stage:iia, alive, 262 days
198.8
TCGA-AF-6136-01A
72 years, female, white, stage:iiib, alive, 741 days
196.5
TCGA-AG-3725-01A
90 years, female, stage:iii, alive, 638 days
196.3
TCGA-F5-6465-01A
64 years, female, white, stage:iia, alive, 1506 days
196.0
TCGA-EI-6508-01A
48 years, female, white, stage:iiib, alive, 636 days
195.9
TCGA-AG-A032-01A
68 years, male, stage:iiib, alive, 1157 days
195.4
TCGA-EI-6507-01A
60 years, male, white, stage:iia, alive, 607 days
193.7
TCGA-AG-3885-01A
71 years, female, stage:iiib, alive, 546 days
192.6
TCGA-CI-6619-01B
41 years, male, white, stage:iv, alive, 184 days
192.2
TCGA-AF-3913-01A
60 years, male, black or african american, stage:iv, dead, 316 days
191.8
TCGA-G5-6235-01A
72 years, male, white, stage:iiib, alive, 1696 days
190.8
TCGA-EI-7004-01A
37 years, female, white, alive, 257 days
190.3
TCGA-AF-2692-01A
54 years, female, white, stage:iia, alive, 412 days
190.1
TCGA-AG-3594-01A
77 years, male, stage:iia, dead, 61 days
189.6
TCGA-AG-A01N-01A
68 years, female, stage:iv, alive, 943 days
188.7
TCGA-AG-3593-01A
72 years, female, stage:iia, alive, 1035 days
187.5
TCGA-AG-A015-01A
64 years, female, stage:i, alive, 1096 days
187.1
TCGA-G5-6641-01A
67 years, male, white, stage:iiia, alive, 804 days
186.4
TCGA-DC-6157-01A
48 years, male, black or african american, stage:i, alive, 1581 days
184.8
TCGA-AF-6672-01A
43 years, male, white, stage:iv, alive, 748 days
183.9
TCGA-AG-3909-01A
69 years, female, stage:iiib, alive, 608 days
180.5
TCGA-AG-4008-01A
63 years, male, stage:iia, alive, 518 days
176.0
TCGA-AG-A00C-01A
49 years, female, stage:iiib, alive, 183 days
175.4
TCGA-F5-6812-01A
67 years, male, white, stage:iia, alive, 1110 days
174.3
TCGA-AG-3731-01A
65 years, male, stage:iv, alive, 1126 days
174.3
TCGA-AG-A025-01A
62 years, female, stage:i, alive, 1520 days
173.4
TCGA-AG-A020-01A
57 years, female, stage:iii, alive, 31 days
170.9
TCGA-AG-A002-01A
35 years, male, stage:i, alive, 638 days
168.6
TCGA-AG-A02N-01A
67 years, male, stage:ii, alive, 1885 days
166.4
TCGA-AG-A00H-01A
75 years, male, stage:iia, alive, 790 days
166.2
TCGA-AG-4007-01A
87 years, male, stage:iv, alive, 31 days
165.6
TCGA-AG-A02G-01A
66 years, male, stage:iv, dead, 1185 days
164.8
TCGA-AF-3911-01A
48 years, male, white, stage:iiic, alive, 1148 days
164.0
TCGA-AF-2690-01A
77 years, female, white, stage:iiic, dead, 524 days
163.2
TCGA-CI-6624-01C
53 years, female, white, stage:i, alive, 1466 days
162.7
TCGA-AG-3587-01A
65 years, male, stage:i, alive, 1400 days
162.0
TCGA-AG-A00Y-01A
68 years, male, stage:iia, alive, 700 days
160.1
TCGA-AG-3584-01A
60 years, male, stage:iv, dead, 730 days
160.0
TCGA-AF-2687-01A
57 years, male, white, stage:iiic, alive, 1427 days
158.2
TCGA-AG-3999-01A
61 years, female, stage:iiic, alive, 853 days
156.6
TCGA-AG-3898-01A
61 years, male, stage:iia, alive, 1461 days
155.5
TCGA-AG-3893-01A
74 years, male, stage:iiib, alive, 1065 days
152.8
TCGA-AG-A036-01A
71 years, male, stage:iii, alive, 3562 days
152.1
TCGA-AH-6547-01A
79 years, female, white, dead, 76 days
148.5
TCGA-F5-6464-01A
77 years, female, white, stage:iiic, dead, 303 days
146.0
TCGA-F5-6811-01A
72 years, female, white, stage:iia, alive, 979 days
141.7
TCGA-AG-A011-01A
80 years, male, stage:iia, alive, 1126 days
139.6
TCGA-AG-A02X-01A
77 years, male, stage:i, alive, 1247 days
139.1
TCGA-EI-6885-01A
57 years, female, white, stage:iv, alive, 415 days
139.0
TCGA-AG-4001-01A
74 years, female, stage:iia, alive, 1096 days
136.4
TCGA-DC-6158-01A
70 years, male, white, stage:i, dead, 334 days
135.7
TCGA-DY-A1DG-01A
75 years, male, white, stage:iva, dead, 1566 days
135.0
TCGA-AF-3400-01A
54 years, male, white, stage:iia, alive, 1049 days
134.9
TCGA-AG-A01J-01A
59 years, female, stage:iia, alive, 31 days
131.2
TCGA-EI-6506-01A
78 years, female, white, stage:iia, alive, 625 days
128.4
TCGA-AG-3732-01A
78 years, female, stage:i, alive, 1003 days
127.4
TCGA-AG-A016-01A
55 years, male, stage:iv, alive, 276 days
126.2
TCGA-AG-4021-01A
84 years, female, stage:iv, dead, 121 days
126.2
TCGA-BM-6198-01A
73 years, male, white, stage:iiib, alive, 646 days
125.9
TCGA-AG-3883-01A
69 years, male, stage:i, alive, 31 days
123.7
TCGA-DY-A1DF-01A
73 years, female, white, stage:iiic, dead, 734 days
121.2
TCGA-AF-A56K-01A
56 years, male, black or african american, stage:iia, alive, 2635 days
120.4
TCGA-AG-3578-01A
76 years, female, stage:iia, alive, 974 days
119.6
TCGA-DC-6156-01A
62 years, male, white, stage:iva, alive, 943 days
119.3
TCGA-AG-A014-01A
86 years, male, stage:i, alive, 485 days
115.7
TCGA-EI-6513-01A
59 years, male, white, stage:iiib, alive, 497 days
106.5
TCGA-DY-A1DD-01A
77 years, female, white, stage:iiib, dead, 1741 days
104.9
TCGA-DY-A1DE-01A
56 years, female, white, stage:iia, alive, 3932 days
100.9
TCGA-F5-6702-01A
71 years, male, white, stage:iva, alive, 869 days
99.8
TCGA-AG-3890-01A
62 years, male, stage:i, alive, 518 days
95.3
TCGA-AG-3728-01A
73 years, male, stage:iiib, alive, 912 days
92.3
TCGA-DC-6155-01A
31 years, female, white, stage:iiia, alive, 425 days
The Human Protein Atlas project is funded
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