We use cookies to enhance the usability of our website. If you continue, we'll assume that you are happy to receive all cookies. More information. Don't show this again.
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.
VAMP5 is not prognostic in Pancreatic Adenocarcinoma (TCGA)
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
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 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 TPM
58.1
Number of samples
176
Samples
Sample
Description
TPM
TCGA-FB-A5VM-01A
74 years, male, white, stage:Stage IB, dead, 498 days
140.6
TCGA-2J-AABP-01A
58 years, female, white, stage:Stage IIB, alive, 463 days
133.9
TCGA-IB-7646-01A
60 years, male, white, stage:Stage IIB, dead, 145 days
128.1
TCGA-OE-A75W-01A
75 years, male, white, stage:Stage IIA, dead, 267 days
121.8
TCGA-FB-AAPS-01A
62 years, female, white, stage:Stage IIB, alive, 228 days
120.0
TCGA-HZ-8637-01A
76 years, female, white, stage:Stage IIB, dead, 517 days
112.9
TCGA-XN-A8T5-01A
53 years, female, white, stage:Stage IB, alive, 720 days
111.0
TCGA-HZ-8001-01A
69 years, male, white, stage:Stage III, alive, 706 days
107.0
TCGA-IB-A6UF-01A
63 years, male, white, stage:Stage IIB, alive, 666 days
106.0
TCGA-IB-AAUS-01A
84 years, female, white, stage:Stage IIB, alive, 225 days
105.8
TCGA-IB-A5SS-01A
64 years, female, white, stage:Stage IIB, dead, 460 days
104.0
TCGA-M8-A5N4-01A
48 years, female, stage:Stage IIA, alive, 584 days
101.9
TCGA-2L-AAQJ-01A
49 years, female, white, stage:Stage III, dead, 394 days
101.9
TCGA-HV-A5A3-01A
50 years, male, asian, stage:Stage IIA, dead, 128 days
96.1
TCGA-IB-A7M4-01A
81 years, male, white, stage:Stage IIB, alive, 483 days
95.1
TCGA-US-A77J-01A
81 years, female, white, stage:Stage IIB, dead, 568 days
94.9
TCGA-HZ-A4BH-01A
75 years, male, white, stage:Stage IIB, alive, 194 days
94.0
TCGA-XD-AAUL-01A
56 years, male, white, stage:Stage IIA, alive, 498 days
93.1
TCGA-HZ-A77Q-01A
55 years, female, white, stage:Stage IIB, alive, 33 days
92.8
TCGA-FB-A4P5-01A
69 years, female, white, stage:Stage IIB, dead, 179 days
92.2
TCGA-IB-7885-01A
78 years, female, white, stage:Stage IIB, alive, 1257 days
90.8
TCGA-HZ-A77P-01A
77 years, male, white, stage:Stage IIB, alive, 330 days
89.6
TCGA-3A-A9IB-01A
69 years, female, white, stage:Stage IIB, dead, 224 days
89.4
TCGA-HV-A7OL-01A
70 years, male, asian, stage:Stage IIA, alive, 252 days
88.8
TCGA-HZ-A49H-01A
68 years, female, white, stage:Stage IIB, alive, 491 days
88.2
TCGA-H6-A45N-01A
88 years, female, white, stage:Stage IIB, dead, 397 days
87.6
TCGA-IB-AAUV-01A
49 years, male, white, stage:Stage IIB, alive, 404 days
86.8
TCGA-HZ-A4BK-01A
72 years, male, white, stage:Stage IIB, alive, 657 days
86.1
TCGA-2J-AABI-01A
55 years, female, white, stage:Stage IIA, alive, 969 days
83.5
TCGA-IB-A5ST-01A
64 years, female, white, stage:Stage IIB, alive, 635 days
83.4
TCGA-IB-7889-01A
85 years, female, white, stage:Stage IIB, dead, 481 days
83.1
TCGA-HZ-7920-01A
71 years, male, white, stage:Stage IB, dead, 236 days
83.0
TCGA-IB-AAUO-01A
64 years, female, white, stage:Stage IIB, dead, 239 days
82.4
TCGA-F2-A7TX-01A
77 years, male, white, stage:Stage IIB, dead, 95 days
82.2
TCGA-RB-AA9M-01A
43 years, male, white, stage:Stage IIB, alive, 286 days
82.2
TCGA-FB-AAQ3-01A
65 years, female, white, stage:Stage IIB, dead, 31 days
79.7
TCGA-RL-AAAS-01A
60 years, female, white, stage:Stage IB, alive, 9 days
79.7
TCGA-IB-AAUR-01A
67 years, male, white, stage:Stage IIB, alive, 338 days
79.0
TCGA-HZ-7923-01A
65 years, male, white, stage:Stage IIA, alive, 314 days
77.4
TCGA-HZ-7919-01A
52 years, female, white, stage:Stage IIB, dead, 593 days
77.1
TCGA-FB-A7DR-01A
48 years, male, asian, stage:Stage IIA, dead, 353 days
76.6
TCGA-HZ-8002-01A
61 years, male, white, stage:Stage IIB, dead, 366 days
76.5
TCGA-2L-AAQL-01A
82 years, male, white, stage:Stage IIB, dead, 292 days
75.4
TCGA-3E-AAAY-01A
67 years, male, white, stage:Stage IIB, alive, 2285 days
75.2
TCGA-XD-AAUI-01A
50 years, female, white, stage:Stage IIB, dead, 366 days
74.6
TCGA-IB-7890-01A
73 years, male, stage:Stage IB, dead, 598 days
74.2
TCGA-Z5-AAPL-01A
74 years, female, white, stage:Stage IIA, alive, 467 days
74.0
TCGA-IB-7893-01A
64 years, male, white, stage:Stage IIA, dead, 117 days
72.4
TCGA-HZ-8315-01A
54 years, female, white, stage:Stage IIA, dead, 299 days
71.8
TCGA-HZ-8005-01A
81 years, male, white, stage:Stage IIB, dead, 120 days
70.4
TCGA-YH-A8SY-01A
73 years, female, white, stage:'--, alive, 388 days
69.6
TCGA-2J-AAB1-01A
65 years, male, white, stage:Stage IIB, dead, 66 days
69.4
TCGA-2J-AABU-01A
56 years, male, white, stage:Stage IIB, dead, 277 days
69.3
TCGA-IB-A5SQ-01A
56 years, female, white, stage:Stage IB, dead, 219 days
69.3
TCGA-HZ-7918-01A
72 years, male, white, stage:Stage IIB, alive, 969 days
67.8
TCGA-IB-AAUU-01A
35 years, male, white, stage:Stage IIB, alive, 245 days
67.3
TCGA-IB-7886-01A
80 years, male, white, stage:Stage IIB, dead, 123 days
67.0
TCGA-HZ-7926-01A
57 years, male, black or african american, stage:Stage IIB, dead, 518 days
67.0
TCGA-IB-AAUQ-01A
50 years, male, white, stage:Stage IIB, dead, 183 days
66.4
TCGA-Q3-A5QY-01A
58 years, male, white, stage:Stage IIB, alive, 416 days
66.1
TCGA-XN-A8T3-01A
67 years, male, white, stage:Stage IB, alive, 951 days
66.1
TCGA-IB-AAUP-01A
68 years, male, white, stage:Stage IIB, alive, 431 days
65.9
TCGA-3A-A9IC-01A
61 years, female, white, stage:Stage IIB, dead, 738 days
65.7
TCGA-FB-A545-01A
72 years, female, white, stage:Stage IIB, dead, 732 days
65.4
TCGA-3A-A9I7-01A
45 years, male, black or african american, stage:Stage IIB, alive, 1323 days
65.2
TCGA-IB-AAUW-01A
63 years, female, white, stage:Stage IIB, dead, 230 days
64.8
TCGA-FB-A4P6-01A
54 years, male, white, stage:Stage IIB, alive, 767 days
63.2
TCGA-2J-AABT-01A
72 years, female, white, stage:Stage IIB, alive, 319 days
63.1
TCGA-IB-7645-01A
44 years, female, stage:Stage IIB, dead, 1502 days
62.9
TCGA-HV-A5A6-01A
65 years, female, asian, stage:Stage IIB, dead, 2036 days
62.4
TCGA-IB-7888-01A
66 years, female, black or african american, stage:Stage IIA, dead, 1332 days
61.7
TCGA-IB-AAUT-01A
65 years, male, white, stage:Stage IIB, alive, 287 days
61.1
TCGA-IB-7897-01A
53 years, female, white, stage:Stage IIB, dead, 486 days
61.1
TCGA-IB-AAUN-01A
74 years, female, white, stage:Stage IB, dead, 144 days
60.3
TCGA-HZ-8519-01A
73 years, male, white, stage:Stage IA, alive, 454 days
60.1
TCGA-HZ-A49I-01A
77 years, male, white, stage:Stage IIB, dead, 308 days
58.8
TCGA-FB-AAPY-01A
71 years, male, white, stage:Stage IIB, dead, 1059 days
58.8
TCGA-HV-A5A5-01A
61 years, female, asian, stage:Stage IIB, alive, 289 days
58.3
TCGA-3A-A9IH-01A
66 years, female, white, stage:Stage IA, alive, 1021 days
57.9
TCGA-XD-AAUH-01A
57 years, female, white, stage:Stage IIB, alive, 395 days
57.1
TCGA-3A-A9IN-01A
62 years, female, white, stage:Stage IB, alive, 2084 days
57.0
TCGA-2L-AAQM-01A
52 years, male, white, stage:Stage IIB, alive, 1383 days
57.0
TCGA-2J-AAB6-01A
75 years, male, white, stage:Stage IIA, dead, 293 days
57.0
TCGA-IB-A5SO-01A
71 years, male, white, stage:Stage IIB, dead, 365 days
56.7
TCGA-IB-8127-01A
59 years, male, white, stage:Stage IIB, alive, 522 days
56.5
TCGA-HZ-7925-01A
66 years, male, white, stage:Stage IIB, dead, 614 days
56.5
TCGA-HZ-A49G-01A
58 years, female, white, stage:Stage IIB, alive, 660 days
56.3
TCGA-IB-A5SP-01A
77 years, male, white, stage:Stage IIA, alive, 482 days
56.3
TCGA-PZ-A5RE-01A
44 years, female, white, stage:Stage IIB, dead, 470 days
56.2
TCGA-F2-6879-01A
57 years, male, white, stage:Stage IIB, dead, 334 days
56.0
TCGA-2J-AABR-01A
60 years, female, white, stage:Stage IIA, alive, 438 days
55.7
TCGA-HZ-A77O-01A
77 years, female, white, stage:Stage IIB, dead, 160 days
54.9
TCGA-IB-7651-01A
64 years, female, white, stage:Stage IIB, dead, 603 days
54.6
TCGA-2J-AABF-01A
73 years, male, white, stage:Stage IIB, dead, 691 days
53.2
TCGA-YY-A8LH-01A
61 years, female, white, stage:Stage IIB, alive, 2016 days
51.5
TCGA-FB-AAPZ-01A
54 years, male, white, stage:Stage IIB, alive, 716 days
50.7
TCGA-F2-7276-01A
64 years, male, white, stage:Stage IIB, dead, 216 days
50.5
TCGA-IB-7891-01A
49 years, female, white, stage:Stage IIB, dead, 913 days
50.2
TCGA-Q3-AA2A-01A
64 years, female, white, stage:Stage IB, alive, 95 days
49.9
TCGA-S4-A8RP-01A
77 years, female, white, stage:Stage IIB, dead, 702 days
49.8
TCGA-2J-AABO-01A
43 years, male, white, stage:Stage IIB, alive, 440 days
49.6
TCGA-HZ-8636-01A
58 years, female, white, stage:Stage IV, dead, 545 days
49.3
TCGA-3A-A9IU-01A
65 years, male, white, stage:Stage IIB, dead, 458 days
49.2
TCGA-YB-A89D-01A
59 years, male, white, stage:Stage IIB, alive, 350 days
49.1
TCGA-F2-7273-01A
54 years, male, black or african american, stage:Stage IIB, dead, 592 days
48.6
TCGA-3A-A9IL-01A
39 years, female, white, stage:Stage I, alive, 2741 days
48.5
TCGA-3A-A9IJ-01A
65 years, male, white, stage:Stage IB, alive, 1854 days
48.3
TCGA-3A-A9IR-01A
64 years, female, white, stage:Stage IB, alive, 1542 days
47.8
TCGA-US-A774-01A
76 years, female, white, stage:Stage IIB, dead, 695 days
47.6
TCGA-US-A779-01A
54 years, female, white, stage:Stage IIB, dead, 511 days
46.8
TCGA-2L-AAQE-01A
56 years, male, white, stage:Stage IIB, dead, 684 days
46.6
TCGA-HZ-7922-01A
61 years, female, white, stage:Stage IIB, alive, 4 days
46.6
TCGA-F2-A44G-01A
79 years, female, white, stage:Stage IIB, dead, 233 days
46.2
TCGA-RB-A7B8-01A
81 years, female, white, stage:Stage IIB, dead, 466 days
45.3
TCGA-IB-7649-01A
73 years, female, stage:Stage IIB, dead, 467 days
45.3
TCGA-LB-A8F3-01A
64 years, female, black or african american, stage:Stage IIA, alive, 379 days
43.7
TCGA-H6-8124-01A
56 years, female, white, stage:Stage IIB, alive, 392 days
43.6
TCGA-HZ-8638-01A
84 years, female, white, stage:Stage IA, dead, 151 days
43.5
TCGA-F2-A8YN-01A
76 years, male, white, stage:Stage IIA, alive, 517 days
43.4
TCGA-HV-A5A4-01A
72 years, female, asian, stage:Stage IIA, alive, 232 days
43.1
TCGA-2L-AAQI-01A
66 years, male, white, stage:Stage IIB, dead, 103 days
42.5
TCGA-2J-AAB8-01A
71 years, male, white, stage:Stage IIB, alive, 80 days
42.5
TCGA-S4-A8RO-01A
75 years, female, white, stage:Stage IIB, alive, 525 days
41.9
TCGA-3A-A9IX-01A
40 years, male, white, stage:Stage IA, alive, 1037 days
41.5
TCGA-FB-AAQ1-01A
49 years, male, white, stage:Stage IIB, dead, 123 days
40.2
TCGA-2J-AABA-01A
55 years, male, white, stage:Stage IIB, dead, 607 days
39.9
TCGA-IB-A6UG-01A
65 years, male, white, stage:Stage IIB, dead, 41 days
39.9
TCGA-HZ-8317-01A
69 years, female, white, stage:Stage IIB, dead, 378 days
39.9
TCGA-S4-A8RM-01A
67 years, male, white, stage:Stage IIB, alive, 737 days
39.4
TCGA-2J-AABH-01A
61 years, male, white, stage:Stage IIA, alive, 1287 days
39.1
TCGA-IB-A7LX-01A
57 years, male, white, stage:Stage IIB, dead, 250 days
38.9
TCGA-IB-7887-01A
62 years, female, white, stage:Stage IIB, dead, 110 days
38.7
TCGA-2J-AAB9-01A
70 years, female, white, stage:Stage IIB, dead, 627 days
38.7
TCGA-2J-AAB4-01A
48 years, male, white, stage:Stage IIB, alive, 729 days
38.3
TCGA-3E-AAAZ-01A
71 years, male, white, stage:Stage IIA, dead, 2182 days
38.2
TCGA-3A-A9J0-01A
75 years, male, white, stage:Stage IIB, alive, 743 days
38.2
TCGA-3A-A9I5-01A
57 years, male, white, stage:'--, alive, 1794 days
37.9
TCGA-HV-AA8V-01A
50 years, male, asian, stage:Stage IIB, alive, 920 days
37.7
TCGA-FB-A78T-01A
71 years, female, white, stage:Stage IIB, dead, 375 days
36.7
TCGA-US-A77E-01A
73 years, male, white, stage:Stage IIB, dead, 430 days
35.1
TCGA-HZ-7924-01A
60 years, female, white, stage:Stage IIA, alive, 840 days
34.6
TCGA-3A-A9I9-01A
67 years, male, white, stage:Stage IIA, dead, 634 days
33.6
TCGA-F2-A44H-01A
65 years, male, white, stage:Stage IIA, alive, 586 days
33.6
TCGA-2J-AABK-01A
71 years, male, white, stage:Stage IIB, alive, 484 days
33.4
TCGA-IB-7644-01A
65 years, female, white, stage:Stage IV, dead, 394 days
33.2
TCGA-HZ-A8P1-01A
81 years, male, white, stage:Stage IB, alive, 7 days
32.9
TCGA-FB-AAQ2-01A
81 years, female, white, stage:Stage IIB, dead, 153 days
32.3
TCGA-XD-AAUG-01A
66 years, female, white, stage:Stage IV, alive, 420 days
32.1
TCGA-2J-AABE-01A
73 years, male, white, stage:Stage IIA, alive, 676 days
31.9
TCGA-HZ-A9TJ-01A
70 years, male, white, stage:Stage IV, alive, 603 days
31.8
TCGA-HV-A7OP-01A
72 years, male, asian, stage:Stage IIB, alive, 978 days
30.8
TCGA-FB-AAQ6-01A
85 years, male, white, stage:Stage IA, dead, 244 days
30.8
TCGA-IB-7652-01A
49 years, female, asian, stage:Stage IIB, alive, 1116 days
29.5
TCGA-IB-7654-01A
80 years, male, white, stage:Stage IIB, dead, 476 days
29.2
TCGA-3A-A9IZ-01A
47 years, male, white, stage:Stage IIB, dead, 308 days
29.1
TCGA-HZ-8003-01A
65 years, female, white, stage:Stage IIB, dead, 596 days
26.8
TCGA-H8-A6C1-01A
53 years, male, white, stage:Stage IIA, alive, 671 days
26.6
TCGA-L1-A7W4-01A
48 years, female, white, stage:Stage IIB, dead, 278 days
26.6
TCGA-IB-8126-01A
79 years, female, white, stage:Stage III, alive, 462 days
26.4
TCGA-FB-AAPQ-01A
65 years, male, white, stage:Stage IIB, dead, 1130 days
26.2
TCGA-FB-AAQ0-01A
68 years, male, white, stage:Stage IIA, dead, 473 days
25.4
TCGA-3A-A9IO-01A
55 years, male, white, stage:'--, alive, 1942 days
24.5
TCGA-HV-AA8X-01A
75 years, female, asian, stage:Stage IIB, dead, 532 days
24.5
TCGA-2L-AAQA-01A
76 years, male, white, stage:Stage IIB, dead, 143 days
24.1
TCGA-IB-AAUM-01A
76 years, male, white, stage:Stage IIB, alive, 8 days
24.1
TCGA-US-A776-01A
61 years, male, white, stage:Stage IIA, alive, 1216 days
22.8
TCGA-LB-A9Q5-01A
63 years, female, white, stage:Stage IIB, dead, 313 days
22.4
TCGA-US-A77G-01A
64 years, male, white, stage:Stage IIB, dead, 12 days
21.9
TCGA-FB-AAPP-01A
71 years, male, white, stage:Stage IIB, dead, 485 days
21.5
TCGA-3A-A9IV-01A
59 years, female, white, stage:Stage IB, alive, 1103 days
21.1
TCGA-LB-A7SX-01A
74 years, female, black or african american, stage:Stage IIB, dead, 393 days
18.2
TCGA-HZ-7289-01A
77 years, male, white, stage:Stage IIB, dead, 661 days
17.1
TCGA-2J-AABV-01A
74 years, male, white, stage:Stage IIB, dead, 652 days
15.8
TCGA-FB-AAPU-01A
41 years, female, asian, stage:Stage IIA, dead, 381 days
15.5
TCGA-3A-A9IS-01A
67 years, male, white, stage:Stage IB, alive, 998 days
13.0
TCGA-F2-6880-01A
70 years, male, white, stage:Stage IIB, alive, 295 days
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.
VAMP5 is not prognostic in Pancreatic Adenocarcinoma (validation)
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
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 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 TPM
5.7
Number of samples
80
Samples
Sample
Description
TPM
DO49076
64 years, male, NA, stage:, dead, 480 days
26.3
DO34696
75 years, male, NA, stage:, alive, 689 days
13.5
DO32878
69 years, female, NA, stage:, dead, 260 days
12.0
DO49204
67 years, male, NA, stage:, dead, 156 days
10.7
DO32875
69 years, male, NA, stage:, dead, 348 days
10.4
DO49135
65 years, male, NA, stage:, alive, 270 days
9.9
DO34640
49 years, female, NA, stage:, dead, 287 days
9.5
DO49079
50 years, male, NA, stage:, dead, 332 days
8.6
DO33336
67 years, female, NA, stage:, dead, 451 days
8.1
DO34728
77 years, female, NA, stage:, alive, 508 days
8.1
DO33128
72 years, male, NA, stage:, dead, 423 days
8.1
DO33984
64 years, male, NA, stage:, alive, 847 days
8.0
DO49138
74 years, male, NA, stage:, dead, 230 days
7.9
DO33472
75 years, female, NA, stage:, dead, 388 days
7.6
DO49170
67 years, male, NA, stage:, alive, 197 days
7.5
DO33480
52 years, male, NA, stage:, alive, 1054 days
7.5
DO33392
70 years, male, NA, stage:, alive, 1014 days
7.4
DO34961
71 years, male, NA, stage:, dead, 632 days
7.3
DO34432
82 years, female, NA, stage:, dead, 400 days
7.1
DO33600
77 years, female, NA, stage:, alive, 854 days
7.0
DO34608
72 years, female, NA, stage:, dead, 709 days
7.0
DO33168
80 years, female, NA, stage:, dead, 8 days
6.9
DO34656
61 years, female, NA, stage:, alive, 834 days
6.7
DO32900
51 years, male, NA, stage:, dead, 768 days
6.5
DO49078
79 years, male, NA, stage:, dead, 465 days
6.5
DO34368
64 years, female, NA, stage:, dead, 537 days
6.4
DO34817
72 years, female, NA, stage:, alive, 540 days
6.3
DO34905
64 years, male, NA, stage:, alive, 1142 days
6.2
DO49164
70 years, male, NA, stage:, alive, 272 days
6.1
DO33368
81 years, male, NA, stage:, dead, 98 days
6.0
DO33512
female, NA, stage:, dead, 499 days
6.0
DO32863
60 years, male, NA, stage:, dead, 715 days
6.0
DO49129
50 years, male, NA, stage:, alive, 337 days
5.9
DO49185
55 years, male, NA, stage:, alive, 179 days
5.9
DO49168
58 years, male, NA, stage:, alive, 149 days
5.9
DO49199
52 years, male, NA, stage:, dead, 1095 days
5.7
DO34600
77 years, male, NA, stage:, dead, 537 days
5.6
DO34736
78 years, female, NA, stage:, dead, 203 days
5.6
DO34240
72 years, male, NA, stage:, dead, 236 days
5.5
DO34504
37 years, male, NA, stage:, dead, 257 days
5.3
DO33408
68 years, female, NA, stage:, alive, 909 days
5.2
DO34801
60 years, male, NA, stage:, alive, 626 days
5.1
DO49127
77 years, female, NA, stage:, alive, 392 days
4.9
DO33344
70 years, male, NA, stage:, dead, 361 days
4.9
DO49184
56 years, male, NA, stage:, dead, 455 days
4.9
DO34448
79 years, female, NA, stage:, dead, 719 days
4.8
DO49137
67 years, female, NA, stage:, alive, 232 days
4.7
DO33552
70 years, female, NA, stage:, alive, 873 days
4.7
DO49181
77 years, male, NA, stage:, dead, 1534 days
4.5
DO49113
46 years, female, NA, stage:, alive, 413 days
4.5
DO34849
86 years, female, NA, stage:, dead, 272 days
4.4
DO34720
68 years, male, NA, stage:, alive, 555 days
4.4
DO49178
58 years, male, NA, stage:, dead, 27 days
4.3
DO33488
61 years, male, NA, stage:, alive, 844 days
4.3
DO49198
61 years, female, NA, stage:, dead, 251 days
4.2
DO33376
62 years, female, NA, stage:, alive, 909 days
4.2
DO49090
77 years, female, NA, stage:, dead, 152 days
4.2
DO49074
49 years, male, NA, stage:, dead, 168 days
4.2
DO49193
60 years, male, NA, stage:, dead, 1 days
4.0
DO32829
78 years, female, NA, stage:T2N0MX, dead, 1874 days
4.0
DO34680
75 years, male, NA, stage:, dead, 99 days
4.0
DO49130
76 years, female, NA, stage:, alive, 351 days
3.9
DO34793
56 years, male, NA, stage:, dead, 427 days
3.8
DO34785
67 years, female, NA, stage:, alive, 721 days
3.7
DO49133
55 years, female, NA, stage:, alive, 188 days
3.5
DO33544
83 years, female, NA, stage:, dead, 412 days
3.4
DO34809
74 years, female, NA, stage:, dead, 297 days
3.4
DO34264
63 years, female, NA, stage:, dead, 1144 days
3.4
DO49080
60 years, male, NA, stage:, alive, 83 days
3.2
DO49183
51 years, female, NA, stage:, dead, 429 days
3.2
DO34312
58 years, female, NA, stage:, dead, 226 days
3.2
DO34288
83 years, female, NA, stage:, dead, 220 days
2.9
DO49172
60 years, female, NA, stage:, dead, 1021 days
2.7
DO33400
76 years, female, NA, stage:, alive, 1043 days
2.7
DO32860
57 years, male, NA, stage:, dead, 1259 days
2.5
DO49166
40 years, female, NA, stage:, alive, 222 days
2.4
DO49087
68 years, female, NA, stage:, dead, 260 days
2.2
DO34616
68 years, female, NA, stage:, alive, 666 days
1.8
DO34336
70 years, female, NA, stage:, alive, 743 days
1.3
DO49175
68 years, male, NA, stage:, dead, 414 days
1.2
Show allShow less
PANCREATIC DUCTAL ADENOCARCINOMA - Protein relative expression (CPTAC)
Number of samples
235
Samples
Sample ID
Sample type
nRPX
CPT0238610009
Tumor
1.8
CPT0187930005
Tumor
1.5
CPT0254680003
Tumor
1.4
CPT0166760004
Tumor
1.4
CPT0125090003
Tumor
1.3
CPT0221240004
Tumor
1.3
KoreanReference2
Tumor
1.3
CPT0226610004
Normal
1.1
CPT0226680005
Tumor
1.0
CPT0162760003
Tumor
0.9
CPT0174800003
Normal
0.9
KoreanReference3
Tumor
0.9
CPT0238640004
Normal
0.9
CPT0078090004
Tumor
0.8
CPT0089720003
Tumor
0.7
CPT0226530004
Tumor
0.7
CPT0125130003
Tumor
0.7
CPT0226570004
Tumor
0.7
CPT0246260004
Tumor
0.6
CPT0124610004
Tumor
0.6
CPT0226600004
Tumor
0.6
CPT0077860003
Tumor
0.6
C3N-02573-03
Normal
0.6
CPT0237840004
Tumor
0.6
CPT0238040005
Tumor
0.6
CPT0109200004
Tumor
0.6
CPT0162660004
Tumor
0.6
CPT0224460004
Tumor
0.5
CPT0008800003
Tumor
0.5
CPT0185920004
Tumor
0.5
CPT0226650004
Tumor
0.5
CPT0208840004
Tumor
0.5
CPT0221470005
Tumor
0.5
CPT0238920004
Tumor
0.5
CPT0094740004
Tumor
0.5
CPT0246720003
Tumor
0.5
CPT0236340004
Tumor
0.5
CPT0091660003
Tumor
0.5
WU-PDA1
Tumor
0.5
CPT0208690004
Tumor
0.5
CPT0238710004
Tumor
0.4
CPT0221250004
Normal
0.4
CPT0198420004
Tumor
0.4
CPT0088260004
Tumor
0.4
CPT0186040004
Tumor
0.4
CPT0227930004
Tumor
0.4
CPT0355180003
Normal
0.4
CPT0241500004
Tumor
0.3
CPT0081060004
Tumor
0.3
C3L-00401-04
Normal
0.3
CPT0108400003
Tumor
0.3
CPT0248590004
Tumor
0.3
CPT0094130004
Tumor
0.3
CPT0238820005
Tumor
0.3
CPT0247000003
Normal
0.3
CPT0078030003
Normal
0.3
CPT0236710004
Normal
0.3
CPT0198910005
Tumor
0.3
CPT0248620003
Normal
0.3
CPT0247040003
Tumor
0.3
CPT0197420004
Tumor
0.3
KoreanReference1
Tumor
0.3
CPT0124500004
Tumor
0.3
CPT0237910004
Tumor
0.3
CPT0217700004
Tumor
0.3
CPT0124360003
Tumor
0.3
CPT0077930004
Tumor
0.2
CPT0063570003
Tumor
0.2
CPT0174700004
Tumor
0.2
CPT0014040003
Tumor
0.2
CPT0238530005
Tumor
0.2
CPT0109010004
Tumor
0.2
CPT0246810003
Tumor
0.2
CPT0093930004
Tumor
0.2
CPT0094180003
Tumor
0.1
CPT0209640005
Tumor
0.1
CPT0138990003
Normal
0.1
CPT0088180004
Tumor
0.1
CPT0218200004
Tumor
0.1
CPT0207780004
Tumor
0.1
CPT0208550005
Tumor
0.1
CPT0246840003
Tumor
0.1
CPT0236560004
Tumor
0.1
CPT0207980005
Tumor
0.1
CPT0187550004
Tumor
0.1
CPT0017040004
Tumor
0.1
CPT0123990003
Tumor
0.1
CPT0246990003
Tumor
0.1
CPT0347850002
Normal
0.1
CPT0209310004
Tumor
0.0
CPT0166780004
Normal
0.0
CPT0237850004
Normal
0.0
CPT0248410004
Tumor
0.0
CPT0081470004
Tumor
0.0
CPT0264150003
Tumor
0.0
CPT0065640003
Tumor
0.0
CPT0078160004
Tumor
0.0
CPT0025750003
Tumor
0.0
CPT0161990005
Tumor
0.0
CPT0094630004
Tumor
0.0
CPT0065570003
Tumor
0.0
CPT0239910004
Tumor
0.0
CPT0235230004
Tumor
0.0
CPT0088320003
Tumor
0.0
CPT0109300004
Tumor
0.0
CPT0126160004
Tumor
-0.1
CPT0127270003
Tumor
-0.1
CPT0246940003
Tumor
-0.1
CPT0081360004
Tumor
-0.1
CPT0226490004
Tumor
-0.1
CPT0246950003
Normal
-0.1
CPT0077790004
Tumor
-0.1
CPT0198700005
Tumor
-0.1
CPT0183750005
Tumor
-0.1
CPT0239140004
Normal
-0.1
CPT0347880002
Normal
-0.2
CPT0078250003
Tumor
-0.2
CPT0208710004
Normal
-0.2
CPT0123750003
Tumor
-0.2
CPT0183450005
Tumor
-0.2
CPT0124980004
Tumor
-0.2
CPT0077810003
Normal
-0.2
CPT0237270005
Tumor
-0.2
CPT0094030003
Tumor
-0.2
CPT0008750003
Tumor
-0.2
CPT0218220004
Normal
-0.2
CPT0094940004
Tumor
-0.2
CPT0187540004
Normal
-0.2
CPT0236700005
Tumor
-0.2
CPT0064090003
Tumor
-0.2
CPT0123770003
Normal
-0.2
CPT0276010003
Tumor
-0.2
CPT0347820002
Normal
-0.3
CPT0083270003
Tumor
-0.3
CPT0123440003
Tumor
-0.3
CPT0276030003
Normal
-0.3
CPT0094230004
Tumor
-0.3
CPT0241320005
Tumor
-0.3
CPT0093980004
Tumor
-0.3
CPT0238440005
Tumor
-0.3
CPT0208850004
Normal
-0.3
CPT0078000003
Tumor
-0.4
CPT0247090003
Tumor
-0.4
CPT0139000004
Tumor
-0.4
CPT0087890004
Tumor
-0.4
CPT0162780004
Normal
-0.4
CPT0197440004
Normal
-0.4
CPT0236780005
Tumor
-0.4
CPT0237920004
Normal
-0.4
CPT0123860003
Tumor
-0.4
CPT0077950003
Normal
-0.4
CPT0161770004
Tumor
-0.4
CPT0248440003
Normal
-0.4
CPT0063970004
Tumor
-0.4
CPT0064570003
Normal
-0.4
CPT0124410004
Tumor
-0.5
CPT0226760004
Tumor
-0.5
CPT0064520004
Tumor
-0.5
C3N-00709-06
Normal
-0.5
CPT0246210004
Tumor
-0.5
CPT0064110003
Normal
-0.5
CPT0019410004
Tumor
-0.5
CPT0241510004
Normal
-0.5
CPT0238940004
Normal
-0.5
CPT0123650003
Tumor
-0.6
CPT0246220004
Normal
-0.6
C3L-00189-04
Normal
-0.6
CPT0108930003
Tumor
-0.6
CPT0170260004
Normal
-0.6
CPT0170240004
Tumor
-0.6
CPT0091680003
Normal
-0.6
CPT0209650004
Normal
-0.6
CPT0108960003
Normal
-0.6
CPT0001750003
Normal
-0.7
CPT0092630003
Tumor
-0.7
CPT0001730017
Tumor
-0.7
CPT0086190004
Tumor
-0.8
CPT0081260004
Tumor
-0.8
CPT0000250017
Tumor
-0.8
CPT0125010003
Normal
-0.9
CPT0162670004
Normal
-0.9
CPT0183770004
Normal
-0.9
CPT0203850004
Tumor
-0.9
CPT0347760002
Normal
-0.9
CPT0093860003
Tumor
-1.0
CPT0236800004
Normal
-1.1
CPT0347790002
Normal
-1.1
CPT0123460003
Normal
-1.1
CPT0207990004
Normal
-1.1
CPT0011520003
Tumor
-1.1
CPT0239100009
Tumor
-1.1
CPT0355190003
Normal
-1.1
CPT0093880003
Normal
-1.2
CPT0089750004
Normal
-1.3
CPT0066020003
Normal
-1.3
CPT0077880003
Normal
-1.3
CPT0355200003
Normal
-1.3
CPT0123670003
Normal
-1.3
CPT0198930003
Normal
-1.3
CPT0239920004
Normal
-1.3
CPT0019300004
Tumor
-1.3
CPT0086210003
Normal
-1.4
CPT0017130003
Normal
-1.5
CPT0025760003
Normal
-1.7
CPT0011540003
Normal
-1.7
CPT0078180003
Normal
-1.7
CPT0124530003
Normal
-1.8
CPT0063580003
Normal
-1.9
CPT0127290003
Normal
-2.0
C3L-03632-04
Normal
-2.0
CPT0123890003
Normal
-2.1
CPT0198440004
Normal
-2.5
CPT0124000003
Normal
-2.9
CPT0236360004
Normal
-3.4
CPT0238740004
Normal
-4.2
CPT0247050003
Normal
N/A
CPT0108410003
Normal
N/A
CPT0248320003
Normal
N/A
CPT0166650006
Tumor
N/A
CPT0224470004
Normal
N/A
C3L-01687-04
Normal
N/A
CPT0138890003
Normal
N/A
CPT0109110004
Tumor
N/A
WU-pooled sample
Tumor
N/A
CPT0014060003
Normal
N/A
CPT0109130003
Normal
N/A
CPT0138900004
Tumor
N/A
CPT0166680004
Normal
N/A
CPT0094760003
Normal
N/A
CPT0186050004
Normal
N/A
CPT0237290004
Normal
N/A
CPT0264180003
Normal
N/A
CPT0063990003
Normal
N/A
CPT0126200003
Normal
N/A
CPT0198730004
Normal
N/A
Show allShow less
PANCREATIC CANCER - 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
