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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.
SEMA6C is not prognostic in Testicular Germ Cell Tumor (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
7.8
Number of samples
133
Samples
Sample
Description
TPM
TCGA-YU-A94I-01A
66 years, male, stage:Stage IA, alive, 536 days
32.3
TCGA-2G-AAL5-01A
31 years, male, white, stage:Stage I, alive, 7437 days
28.7
TCGA-XE-AANI-01A
37 years, male, white, stage:Stage IS, alive, 1041 days
28.0
TCGA-2G-AAFV-01A
31 years, male, white, stage:Stage IS, alive, 1389 days
26.6
TCGA-2G-AAGY-01A
28 years, male, white, stage:Stage IS, alive, 5329 days
26.4
TCGA-SN-A84W-01A
30 years, male, white, stage:Stage IS, alive, 293 days
25.0
TCGA-XE-AAOC-01A
31 years, male, white, stage:Stage IA, alive, 270 days
24.9
TCGA-YU-AA61-01A
29 years, male, white, stage:Stage IS, alive, 864 days
23.5
TCGA-2G-AAGS-01A
39 years, male, white, stage:Stage IIIB, alive, 4816 days
22.2
TCGA-YU-A94D-01A
28 years, male, stage:Stage IIIB, alive, 2167 days
22.0
TCGA-S6-A8JX-01A
27 years, male, white, stage:Stage IB, alive, 552 days
16.7
TCGA-2G-AAFJ-01A
23 years, male, asian, stage:'--, alive, 792 days
16.4
TCGA-2G-AAHC-01A
33 years, male, white, stage:Stage IS, alive, 5539 days
13.9
TCGA-XE-AANJ-01A
39 years, male, white, stage:Stage IS, alive, 2007 days
13.3
TCGA-2G-AAGX-01A
22 years, male, white, stage:Stage IA, alive, 5514 days
13.3
TCGA-S6-A8JY-01A
27 years, male, white, stage:Stage IS, alive, 278 days
13.0
TCGA-2G-AAH4-01A
34 years, male, white, stage:Stage II, alive, 6210 days
12.6
TCGA-2X-A9D6-01A
42 years, male, white, stage:Stage I, alive, 607 days
12.4
TCGA-2G-AAHG-01A
25 years, male, white, stage:Stage I, alive, 1819 days
12.3
TCGA-XY-A89B-01A
35 years, male, white, stage:Stage IA, alive, 471 days
12.2
TCGA-SO-A8JP-01A
29 years, male, white, stage:Stage I, alive, 540 days
12.0
TCGA-2G-AAF4-01A
30 years, male, white, stage:Stage I, alive, 2315 days
11.8
TCGA-XE-A8H4-01A
23 years, male, white, stage:Stage IA, alive, 559 days
11.3
TCGA-XE-AAOJ-01A
24 years, male, white, stage:Stage IS, alive, 1550 days
11.2
TCGA-ZM-AA0N-01A
44 years, male, white, stage:Stage IB, alive, 634 days
11.1
TCGA-ZM-AA0B-01A
32 years, male, white, stage:Stage IA, alive, 838 days
11.0
TCGA-WZ-A7V5-01A
27 years, male, white, stage:Stage I, alive, 1061 days
11.0
TCGA-2G-AAF8-01A
33 years, male, white, stage:Stage IA, alive, 3911 days
10.9
TCGA-2G-AAGM-01A
51 years, male, white, stage:Stage IS, alive, 3891 days
10.5
TCGA-WZ-A7V4-01A
28 years, male, white, stage:Stage I, alive, 894 days
10.5
TCGA-XE-A8H5-01A
29 years, male, stage:Stage IS, alive, 1217 days
10.1
TCGA-SN-A6IS-01A
26 years, male, white, stage:Stage IS, alive, 496 days
10.0
TCGA-2G-AAG6-01A
24 years, male, white, stage:Stage IS, alive, 2231 days
9.9
TCGA-VF-A8AB-01A
31 years, male, black or african american, stage:Stage IA, alive, 760 days
9.8
TCGA-YU-A90W-01A
45 years, male, white, stage:Stage IA, alive, 1113 days
9.7
TCGA-2G-AAEW-01A
31 years, male, white, stage:Stage IS, dead, 618 days
9.7
TCGA-2G-AAFE-01A
37 years, male, white, stage:Stage IIA, alive, 4702 days
9.7
TCGA-VF-A8AC-01A
29 years, male, white, stage:Stage IA, alive, 1083 days
9.5
TCGA-W4-A7U3-01A
26 years, male, white, stage:'--, alive, 149 days
9.5
TCGA-X3-A8G4-01A
33 years, male, white, stage:Stage IS, alive, 856 days
9.2
TCGA-XY-A8S2-01A
67 years, male, white, stage:Stage I, alive, 672 days
9.1
TCGA-2G-AAFZ-01A
32 years, male, white, stage:Stage III, alive, 1353 days
9.1
TCGA-4K-AA1G-01A
34 years, male, white, stage:Stage IS, alive, 436 days
8.5
TCGA-SN-A84Y-01A
18 years, male, white, stage:Stage IS, alive, 524 days
8.3
TCGA-XE-AAO3-01A
33 years, male, asian, stage:Stage I, alive, 2857 days
8.1
TCGA-4K-AAAL-01A
31 years, male, white, stage:Stage IS, alive, 483 days
8.1
TCGA-S6-A8JW-01A
37 years, male, white, stage:Stage IS, alive, 698 days
8.1
TCGA-YU-A90Q-01A
21 years, male, stage:Stage IB, alive, 1964 days
8.0
TCGA-2G-AAG3-01A
53 years, male, white, stage:Stage IS, alive, 1593 days
8.0
TCGA-W4-A7U2-01A
26 years, male, white, stage:'--, alive, 1263 days
7.9
TCGA-VF-A8A9-01A
31 years, male, white, stage:Stage IA, alive, 1119 days
7.8
TCGA-2X-A9D5-01A
49 years, male, white, stage:Stage I, alive, 435 days
7.6
TCGA-2G-AAKD-01A
18 years, male, white, stage:Stage III, alive, 6340 days
7.6
TCGA-2G-AAG9-01A
25 years, male, white, stage:Stage IIIB, alive, 2234 days
7.6
TCGA-2G-AAHT-01A
32 years, male, white, stage:Stage IS, alive, 542 days
7.5
TCGA-2G-AAGP-01A
33 years, male, white, stage:Stage IIA, alive, 4018 days
7.3
TCGA-XE-AAO6-01A
47 years, male, white, stage:Stage IA, alive, 240 days
7.2
TCGA-2G-AAH8-01A
45 years, male, white, stage:Stage IIIC, alive, 2248 days
7.1
TCGA-XY-A9T9-01A
37 years, male, white, stage:Stage IS, alive, 281 days
6.8
TCGA-2G-AAEX-01A
38 years, male, white, stage:Stage IS, alive, 1259 days
6.8
TCGA-2G-AAHP-01A
31 years, male, white, stage:Stage IS, alive, 5667 days
6.8
TCGA-2G-AAG5-01A
36 years, male, white, stage:Stage IS, alive, 2299 days
6.7
TCGA-2G-AAFL-01A
35 years, male, white, stage:Stage IB, alive, 750 days
6.7
TCGA-2G-AAGV-01A
23 years, male, white, stage:'--, alive, 4527 days
6.7
TCGA-2G-AAGI-01A
33 years, male, white, stage:Stage IS, alive, 3137 days
6.5
TCGA-YU-A912-01A
34 years, male, black or african american, stage:Stage IIIC, alive, 866 days
6.4
TCGA-2G-AAH2-01A
20 years, male, white, stage:Stage IS, alive, 6060 days
6.3
TCGA-ZM-AA06-01A
45 years, male, white, stage:Stage IB, alive, 1498 days
6.2
TCGA-ZM-AA05-01A
36 years, male, white, stage:Stage IIC, alive, 1126 days
6.0
TCGA-2G-AAGG-01A
20 years, male, white, stage:Stage IIIC, alive, 2611 days
6.0
TCGA-XE-AAOF-01A
50 years, male, asian, stage:Stage IA, alive, 1268 days
5.9
TCGA-2G-AAFH-01A
38 years, male, white, stage:Stage IIB, alive, 1375 days
5.8
TCGA-2G-AAF1-01A
28 years, male, asian, stage:Stage IS, alive, 1403 days
5.6
TCGA-XE-AAOD-01A
39 years, male, white, stage:Stage IB, alive, 2058 days
5.6
TCGA-XE-AAO4-01A
40 years, male, white, stage:Stage IA, alive, 367 days
5.5
TCGA-2G-AAFO-01A
33 years, male, white, stage:Stage IIA, alive, 685 days
5.1
TCGA-XE-AANV-01A
52 years, male, stage:Stage IB, alive, 1701 days
4.9
TCGA-SN-A84X-01A
21 years, male, white, stage:Stage IS, alive, 312 days
4.9
TCGA-2G-AAGK-01A
20 years, male, white, stage:Stage IS, alive, 3621 days
4.9
TCGA-2G-AAKL-01A
26 years, male, white, stage:Stage II, alive, 7023 days
4.9
TCGA-2G-AAG7-01A
33 years, male, white, stage:Stage IS, alive, 2475 days
4.8
TCGA-XE-AANR-01A
23 years, male, white, stage:Stage I, alive, 14 days
4.8
TCGA-2G-AAH0-01A
30 years, male, white, stage:Stage IS, alive, 5477 days
4.8
TCGA-WZ-A7V3-01A
20 years, male, white, stage:Stage I, alive, 753 days
4.7
TCGA-2G-AAKM-01A
14 years, male, white, stage:Stage II, dead, 6972 days
4.5
TCGA-2G-AAL7-01A
32 years, male, white, stage:Stage IS, alive, 3991 days
4.3
TCGA-2G-AAHN-01A
32 years, male, white, stage:Stage I, alive, 6445 days
4.1
TCGA-2G-AAG8-01A
21 years, male, white, stage:Stage IB, alive, 2289 days
4.1
TCGA-ZM-AA0E-01A
39 years, male, white, stage:Stage IA, alive, 811 days
4.1
TCGA-2G-AAGC-01A
28 years, male, white, stage:Stage IS, alive, 2585 days
4.0
TCGA-4K-AA1H-01A
26 years, male, white, stage:Stage IA, alive, 518 days
4.0
TCGA-2G-AAF6-01A
28 years, male, white, stage:Stage IS, alive, 3491 days
3.9
TCGA-SB-A6J6-01A
22 years, male, white, stage:Stage IA, alive, 413 days
3.9
TCGA-2G-AAHA-01A
48 years, male, white, stage:Stage IB, alive, 3349 days
3.8
TCGA-YU-A90Y-01A
23 years, male, black or african american, stage:Stage IIIC, dead, 17 days
3.8
TCGA-SB-A76C-01A
38 years, male, white, stage:'--, alive, 42 days
3.8
TCGA-WZ-A8D5-01A
38 years, male, white, stage:'--, alive, 774 days
3.8
TCGA-W4-A7U4-01A
23 years, male, white, stage:'--, alive, 738 days
3.8
TCGA-2G-AAFN-01A
26 years, male, white, stage:Stage IIIB, alive, 773 days
3.7
TCGA-XE-A8H1-01A
24 years, male, white, stage:Stage IS, alive, 209 days
3.7
TCGA-VF-A8AE-01A
39 years, male, white, stage:Stage IA, alive, 727 days
3.7
TCGA-2G-AAGA-01A
38 years, male, white, stage:Stage IIA, alive, 2439 days
3.6
TCGA-2G-AAH3-01A
20 years, male, white, stage:Stage I, alive, 1822 days
3.5
TCGA-VF-A8AA-01A
51 years, male, white, stage:Stage I, alive, 1146 days
3.4
TCGA-2G-AAKH-01A
19 years, male, white, stage:Stage II, alive, 6862 days
3.3
TCGA-2G-AAKG-01A
22 years, male, white, stage:Stage I, alive, 6598 days
3.3
TCGA-ZM-AA0H-01A
50 years, male, white, stage:Stage IS, alive, 1736 days
3.2
TCGA-2G-AAG0-01A
23 years, male, white, stage:Stage IS, alive, 1529 days
3.2
TCGA-ZM-AA0D-01A
34 years, male, white, stage:Stage IA, alive, 848 days
3.1
TCGA-2G-AAFG-01A
30 years, male, white, stage:Stage IS, alive, 6183 days
3.1
TCGA-2G-AAGZ-01A
27 years, male, white, stage:Stage IIIA, alive, 5233 days
3.1
TCGA-2G-AAGJ-01A
28 years, male, black or african american, stage:Stage IA, alive, 2938 days
3.0
TCGA-2G-AAFY-01A
24 years, male, white, stage:Stage IIA, alive, 1099 days
2.8
TCGA-2G-AALP-01A
43 years, male, white, stage:Stage IIIB, alive, 2645 days
2.8
TCGA-XE-AAOL-01A
38 years, male, black or african american, stage:Stage I, alive, 13 days
2.7
TCGA-2G-AAGO-01A
41 years, male, white, stage:Stage IS, alive, 4026 days
2.7
TCGA-2G-AAHL-01A
26 years, male, white, stage:Stage I, alive, 7081 days
2.5
TCGA-YU-A90P-01A
25 years, male, white, stage:Stage IA, alive, 2069 days
2.5
TCGA-YU-A90S-01A
26 years, male, white, stage:Stage IA, alive, 971 days
2.4
TCGA-VF-A8AD-01A
36 years, male, white, stage:Stage IB, alive, 1006 days
2.3
TCGA-ZM-AA0F-01A
35 years, male, white, stage:Stage IA, alive, 681 days
2.3
TCGA-2G-AAGF-01A
28 years, male, white, stage:Stage IS, alive, 2734 days
2.1
TCGA-VF-A8A8-01A
18 years, male, white, stage:Stage IA, alive, 1131 days
2.0
TCGA-2G-AAFI-01A
41 years, male, white, stage:Stage IB, alive, 675 days
2.0
TCGA-2G-AAFM-01A
31 years, male, white, stage:Stage IIA, alive, 503 days
1.8
TCGA-4K-AA1I-01A
26 years, male, white, stage:Stage IA, alive, 3 days
1.7
TCGA-XE-AAOB-01A
27 years, male, white, stage:Stage IS, dead, 513 days
1.6
TCGA-2G-AAGT-01A
30 years, male, white, stage:Stage IS, alive, 4406 days
1.5
TCGA-2G-AAGE-01A
21 years, male, white, stage:Stage IS, alive, 2478 days
1.4
TCGA-XE-A9SE-01A
35 years, male, white, stage:Stage IA, alive, 708 days
0.0
TCGA-YU-AA4L-01A
27 years, male, black or african american, stage:Stage IIIC, alive, 1573 days
0.0
TCGA-2G-AAGW-01A
38 years, male, white, stage:Stage IS, alive, 4899 days
0.0
TCGA-2G-AAGN-01A
41 years, male, white, stage:Stage IIIB, alive, 3656 days
0.0
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TESTIS 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.
The Human Protein Atlas project is funded
