Expression of VIM in glioma - The Human Protein Atlas

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GLIOMA - Interactive survival scatter plotⁱ

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

VIM is not prognostic in glioma

Stage:

Survival analysis

Current cut offⁱ:
Best expression cut offⁱ: 443.49
Median expressionⁱ: N/A
Median follow up timeⁱ: N/A
P scoreⁱ N/A
3-year survival highⁱ N/A
3-year survival lowⁱ N/A

TCGA RNA samplesⁱ

Average FPKM

611.8

Number of samples

153

Samples

Sample	Description	FPKM
TCGA-32-2616-01A	48 years, female, white, dead, 224 days	1548.1
TCGA-28-2509-01A	77 years, female, white, alive, 145 days	1487.0
TCGA-06-0125-01A	63 years, female, white, dead, 1448 days	1203.5
TCGA-19-2625-01A	76 years, female, white, dead, 124 days	1132.0
TCGA-02-2486-01A	64 years, male, white, dead, 618 days	1129.3
TCGA-19-2619-01A	55 years, female, black or african american, alive, 294 days	1076.1
TCGA-14-0781-01B	49 years, male, black or african american, dead, 29 days	1047.2
TCGA-06-0747-01A	53 years, male, white, dead, 82 days	1035.5
TCGA-28-5216-01A	52 years, male, white, alive, 415 days	1030.5
TCGA-06-2559-01A	83 years, male, white, dead, 150 days	1030.4
TCGA-06-5408-01A	54 years, female, white, dead, 357 days	1013.1
TCGA-76-4932-01A	50 years, female, white, dead, 1458 days	1005.0
TCGA-14-1034-01A	60 years, female, dead, 485 days	970.3
TCGA-76-4928-01B	85 years, female, white, dead, 94 days	958.6
TCGA-27-2524-01A	56 years, male, white, dead, 231 days	945.4
TCGA-06-0210-01A	72 years, female, white, dead, 225 days	940.3
TCGA-06-0750-01A	43 years, male, white, dead, 28 days	926.6
TCGA-06-5858-01A	45 years, female, white, alive, 187 days	919.4
TCGA-27-2526-01A	79 years, female, white, dead, 87 days	916.2
TCGA-27-2528-01A	62 years, male, white, dead, 480 days	914.6
TCGA-32-2632-01A	80 years, male, white, dead, 269 days	908.7
TCGA-06-5418-01A	75 years, female, white, dead, 83 days	906.5
TCGA-32-2615-01A	62 years, male, white, dead, 485 days	899.3
TCGA-06-0644-01A	71 years, male, black or african american, dead, 384 days	892.2
TCGA-28-5209-01A	66 years, female, white, alive, 77 days	890.6
TCGA-06-5856-01A	58 years, male, white, dead, 114 days	886.6
TCGA-02-0055-01A	62 years, female, white, dead, 76 days	859.3
TCGA-32-2638-01A	67 years, male, white, dead, 766 days	857.9
TCGA-12-5295-01A	60 years, female, white, dead, 454 days	832.0
TCGA-06-0190-01A	62 years, male, white, dead, 317 days	830.4
TCGA-41-4097-01A	63 years, female, white, dead, 6 days	828.4
TCGA-06-0878-01A	74 years, male, white, alive, 218 days	827.3
TCGA-12-3652-01A	60 years, male, white, dead, 1062 days	825.6
TCGA-41-3915-01A	48 years, male, white, dead, 360 days	825.6
TCGA-19-4065-01A	36 years, male, white, alive, 214 days	815.4
TCGA-14-0787-01A	69 years, male, asian, dead, 68 days	811.7
TCGA-27-1832-01A	59 years, female, white, dead, 300 days	809.8
TCGA-15-0742-01A	65 years, male, white, dead, 419 days	807.5
TCGA-19-1787-01B	49 years, male, white, dead, 385 days	797.1
TCGA-32-4213-01A	47 years, female, white, alive, 604 days	791.6
TCGA-26-5132-01A	74 years, male, white, alive, 286 days	786.5
TCGA-06-0130-01A	54 years, male, white, dead, 394 days	776.7
TCGA-27-1835-01A	53 years, female, white, dead, 648 days	775.3
TCGA-12-5299-01A	56 years, female, white, dead, 98 days	769.2
TCGA-26-5139-01A	65 years, female, white, alive, 48 days	761.5
TCGA-27-2523-01A	63 years, male, white, dead, 489 days	758.4
TCGA-06-0184-01A	63 years, male, white, dead, 2126 days	739.4
TCGA-06-2562-01A	81 years, male, white, dead, 382 days	736.5
TCGA-14-0789-01A	54 years, male, white, dead, 342 days	734.3
TCGA-28-5208-01A	52 years, male, white, dead, 544 days	723.7
TCGA-06-0743-01A	69 years, male, white, dead, 803 days	716.5
TCGA-02-0047-01A	78 years, male, white, dead, 448 days	713.5
TCGA-06-5412-01A	78 years, female, white, dead, 138 days	692.6
TCGA-06-2561-01A	53 years, female, white, dead, 537 days	690.9
TCGA-06-0745-01A	59 years, male, white, dead, 239 days	685.4
TCGA-06-0187-01A	69 years, male, white, dead, 828 days	684.6
TCGA-27-1830-01A	57 years, male, white, dead, 154 days	676.1
TCGA-06-0211-01B	47 years, male, white, dead, 360 days	668.9
TCGA-06-5414-01A	61 years, male, white, alive, 273 days	665.1
TCGA-06-5410-01A	72 years, female, white, dead, 108 days	664.3
TCGA-41-2572-01A	67 years, male, white, dead, 406 days	659.9
TCGA-06-5416-01A	23 years, female, white, alive, 204 days	652.0
TCGA-19-2620-01A	70 years, male, white, dead, 148 days	649.9
TCGA-06-0168-01A	59 years, female, white, dead, 598 days	647.2
TCGA-28-5204-01A	72 years, male, white, dead, 454 days	647.2
TCGA-76-4927-01A	58 years, male, white, dead, 535 days	636.8
TCGA-76-4925-01A	76 years, male, white, dead, 146 days	631.8
TCGA-06-0645-01A	56 years, female, white, dead, 175 days	628.1
TCGA-06-2564-01A	50 years, male, white, alive, 181 days	627.9
TCGA-06-0882-01A	30 years, male, white, dead, 632 days	623.4
TCGA-28-2513-01A	69 years, female, white, alive, 222 days	617.2
TCGA-26-5136-01B	78 years, female, white, dead, 577 days	605.2
TCGA-16-1045-01B	49 years, female, white, dead, 883 days	600.8
TCGA-06-2563-01A	72 years, female, white, alive, 932 days	589.4
TCGA-12-0619-01A	60 years, male, white, dead, 1062 days	587.8
TCGA-32-1982-01A	76 years, female, white, dead, 142 days	572.2
TCGA-12-0821-01A	62 years, male, white, dead, 323 days	569.4
TCGA-27-2519-01A	48 years, male, white, dead, 550 days	567.9
TCGA-28-5207-01A	71 years, male, white, dead, 343 days	566.8
TCGA-06-2565-01A	59 years, male, asian, dead, 506 days	560.4
TCGA-06-0158-01A	73 years, male, white, dead, 329 days	560.3
TCGA-06-0649-01B	73 years, female, black or african american, dead, 64 days	557.2
TCGA-27-2521-01A	34 years, male, white, dead, 510 days	537.9
TCGA-28-5213-01A	72 years, male, white, alive, 951 days	537.4
TCGA-32-5222-01A	66 years, male, white, dead, 585 days	534.8
TCGA-12-3653-01A	34 years, female, white, dead, 442 days	533.9
TCGA-06-0139-01A	40 years, male, white, dead, 362 days	528.9
TCGA-14-2554-01A	52 years, female, white, dead, 532 days	521.6
TCGA-28-1753-01A	53 years, male, white, alive, 37 days	516.3
TCGA-14-0817-01A	69 years, female, white, dead, 164 days	515.7
TCGA-28-2514-01A	45 years, male, asian, alive, 160 days	512.3
TCGA-12-3650-01A	46 years, male, white, dead, 333 days	510.7
TCGA-28-5215-01A	62 years, female, white, dead, 335 days	509.5
TCGA-32-1980-01A	72 years, male, white, dead, 36 days	506.6
TCGA-76-4931-01A	70 years, female, white, dead, 279 days	503.5
TCGA-06-0174-01A	54 years, male, white, dead, 98 days	490.2
TCGA-06-0646-01A	61 years, male, white, dead, 175 days	487.3
TCGA-76-4926-01B	68 years, male, white, dead, 138 days	479.3
TCGA-19-5960-01A	56 years, male, white, dead, 455 days	473.1
TCGA-76-4929-01A	76 years, female, white, dead, 111 days	473.0
TCGA-26-5135-01A	72 years, female, white, dead, 270 days	464.8
TCGA-06-5859-01A	63 years, male, white, alive, 139 days	461.3
TCGA-27-1831-01A	66 years, male, white, dead, 505 days	459.6
TCGA-27-1837-01A	36 years, male, white, dead, 427 days	457.9
TCGA-26-5134-01A	74 years, male, white, alive, 167 days	455.2
TCGA-28-2499-01A	59 years, male, white, dead, 95 days	450.4
TCGA-08-0386-01A	74 years, male, white, dead, 548 days	449.4
TCGA-06-2557-01A	76 years, male, black or african american, dead, 33 days	445.5
TCGA-06-2570-01A	21 years, female, white, alive, 958 days	441.5
TCGA-32-2634-01A	82 years, male, white, alive, 693 days	427.9
TCGA-06-0138-01A	43 years, male, white, dead, 737 days	423.2
TCGA-06-0141-01A	62 years, male, white, dead, 313 days	420.6
TCGA-28-5218-01A	63 years, male, white, dead, 157 days	416.5
TCGA-14-1823-01A	58 years, female, white, dead, 543 days	410.5
TCGA-06-0219-01A	67 years, male, white, dead, 22 days	403.9
TCGA-27-1834-01A	56 years, male, white, dead, 1233 days	399.6
TCGA-06-0178-01A	39 years, male, white, dead, 2681 days	394.4
TCGA-06-0744-01A	67 years, male, white, dead, 1426 days	392.3
TCGA-14-0790-01B	64 years, female, white, dead, 419 days	387.3
TCGA-02-2483-01A	43 years, male, asian, alive, 466 days	385.0
TCGA-06-0686-01A	53 years, male, white, dead, 432 days	376.0
TCGA-06-0156-01A	57 years, male, white, dead, 178 days	375.1
TCGA-28-1747-01C	44 years, male, white, dead, 77 days	374.1
TCGA-06-2569-01A	24 years, female, black or african american, alive, 13 days	372.3
TCGA-32-1970-01A	59 years, male, white, dead, 468 days	367.0
TCGA-06-5413-01A	67 years, male, white, alive, 268 days	362.3
TCGA-06-1804-01A	81 years, female, white, dead, 414 days	361.5
TCGA-06-0157-01A	63 years, female, white, dead, 97 days	360.6
TCGA-02-2485-01A	53 years, male, black or african american, alive, 470 days	353.8
TCGA-06-0749-01A	50 years, male, black or african american, dead, 82 days	348.4
TCGA-19-2629-01A	60 years, male, white, dead, 737 days	348.1
TCGA-06-5417-01A	45 years, female, white, alive, 155 days	341.1
TCGA-26-5133-01A	59 years, male, white, alive, 452 days	340.4
TCGA-06-0132-01A	49 years, male, white, dead, 771 days	331.2
TCGA-41-2571-01A	89 years, male, white, dead, 26 days	329.9
TCGA-19-1390-01A	63 years, female, white, dead, 772 days	324.8
TCGA-15-1444-01A	21 years, male, white, dead, 1537 days	324.3
TCGA-12-0616-01A	36 years, female, white, dead, 448 days	322.9
TCGA-06-2567-01A	65 years, male, white, dead, 133 days	319.9
TCGA-19-2624-01A	51 years, male, white, dead, 5 days	316.5
TCGA-14-1829-01A	57 years, male, black or african american, alive, 218 days	315.9
TCGA-26-1442-01A	43 years, male, white, alive, 953 days	314.2
TCGA-16-0846-01A	85 years, male, white, dead, 119 days	281.3
TCGA-41-5651-01A	59 years, female, black or african american, dead, 460 days	278.2
TCGA-06-2558-01A	75 years, female, white, dead, 380 days	256.1
TCGA-12-1597-01B	62 years, female, white, dead, 675 days	253.0
TCGA-06-0129-01A	30 years, male, asian, dead, 1024 days	246.8
TCGA-14-1825-01A	70 years, male, white, dead, 232 days	209.8
TCGA-14-0871-01A	75 years, female, white, dead, 880 days	202.5
TCGA-12-0618-01A	49 years, male, white, dead, 395 days	195.1
TCGA-06-0238-01A	46 years, male, white, dead, 405 days	171.7
TCGA-06-5411-01A	51 years, male, white, dead, 254 days	170.0
TCGA-28-5220-01A	67 years, male, white, dead, 388 days	133.2
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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. This score is based on the staining intensity and fraction of stained cells. Read more	Antibody HPA001762	Antibody CAB000080	Antibody CAB058687
Staining
High
Medium
Low
Not detected
Intensity
Strong
Moderate
Weak
Negative
Quantity
>75%
75%-25%
<25%
None
Location
Nuclear
Cytoplasmic/membranous
Cytoplasmic/membranous,nuclear
None
Click images for details

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.