- Sample information
- Sample name
- COSMIC sample ID
- Tumour location
Upper aerodigestive tract; Pharynx (Carcinoma)
View this tissue/histology in the Cancer Browser
- Screening method
- Whole exome screening
- Sample type
- Cultured Sample
Cell line sourceOrigin of cultured sample e.g. metastasis
Sample sourceDescription of sample e.g. surgery-fixed, blood-bone marrow
- Curated features
- Sample details
- Tumour details
- Individual details
- Normal tissue tested
- Additional information
- Microsatellite instability (MSI)
- Other samples linked to the same individual
- American Type Culture Collection (ATCC)
- P.O. Box 1549, Manassas, VA 20108, USA
- External links
- STR profile data
- Sequence statistics
GRCh38 · COSMIC v98
This tab shows an overview of the data that we have for this sample. You can read more about these data on our help pages.
This tab displays a Circos diagram, a circular plot showing each chromosome of the genome as a segment, with each datatype shown as a separate track on the image. Move your mouse over the plot to highlight a region of the genome, then click to view the region in the Genome Browser. Show more
Circos gives a clear overview of all the structural variants, aberrant gene expression and copy number, and both coding and non-coding point mutations for the selected sample. This image is available for whole genome screens.
Circos is a software package developed by Martin Krzywinski (for more details see Krzywinski, M. et al).
This tab shows a circos diagram of the sample data [more details]
Data in each ring, starting from the outermost ring:
- Nonsense mutations
- Missense mutations
- Silent mutations
- Splice mutations
- Complex mutations
- Non coding Variants
Histogram with light pink and light blue background colour:
- Hyper Methylation
- Hypo Methylation
Histogram with red and green circles:
- Over Expression
- Under Expression
Pink and Blue histogram:
- CNV Gain
- CNV Loss
Green and Purple ribbons in the innermost circular space:
- Intra-chromosomal Rearrangements
- Inter-chromosomal Rearrangements
Note that you can also view the genome browser in a separate page.
The genome browser shows COSMIC annotations for this gene in a genomic context. Show more
Note: in some web browsers the genome browser may display a blank content panel when switching between browser tabs or when returning to the page using the browser's Back button. If this happens please click and drag the blank content panel to reload the genome browser.
This tab shows the mutations observed in this sample. See more information in our help pages.
|Gene||CDS Mutation||Somatic status||Zygosity||Validated||Type|
|Mutation ID (COST)||Mutation Description||Chromosome From||Breakpoint From (GRCh38)||Strand||Chromosome To||Breakpoint To (GRCh38)||Strand||Non Templated Inserted Seq|
|Sample ID||ID NCV||Annotation||Zygosity||Chromosome||Genome start||Genome stop||Genome version||Strand||WT seq||Mut seq||FATHMM-MKL|
The average ploidy of the genome is . The table currently shows only high value (numeric) copy number data. Copy number segments are excluded if the total copy number and minor allele values are unknown.
Click here to include all copy number data. For more detailed information about copy number data and gain/loss definitions click here.
|Gene||Expression||Expr Level (Z-Score)
Over Expressed; Z-Score > 2.0
Under Expressed; Z-Score < -2.0
Normal; Z-Score within the range -2.0 to 2.0
|CN Type||Minor Allele||Copy Number||CN Segment Posn.||Average Ploidy
1. N/A represents cases where the average ploidy value is not available( mostly ICGC samples). For some TCGA samples where the minor allele information is not available the average ploidy value could not be calculated.
2. For TCGA samples, the ASCAT algorithm was used to calculate the average ploidy.
3. For CGP samples, the PICNIC algorithm was used to calculate the average ploidy.
|Gene Name||Probe ID||Probe Posn.||Type
High (Hypermethylated); Beta-Value > 0.8 and differs from normal average by > 0.5
Low (Hypomethylated); Beta-Value < 0.2 and differs from normal average by > 0.5
|Level (Beta-Value)||Normal Average|
This tab shows the mutation spectrum observed in this sample. Read more in our help pages.
There is no mutation spectrum data for this sample.
Only available in the cell lines site.
Only available in the cell lines site.
This tab shows the genes with no mutations in this sample. You can read more in our help pages.
|Gene name||Id Gene|
This tab shows the publications associated with this sample. You can read more in our help pages.
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