Callable cancer loci - SEQC-II-50pc__SEQC-II_Tumor_50pc

The coverage report is generated with cacao version 0.2.1, using the following key settings:

• Genome assembly: grch38

• Mode: Actionable somatic loci AND somatic hotspots

• Data sources - cancer loci:

  • ClinVar - release 20181101
  • CIViC - Nov 18th 2018
  • cancerhotspots.org - version 2 (2017)

• Alignment quality threshold (MAPQ): 0

• Alignment filename: SEQC-II_Tumor_50pc-ready.bam

• Target regions filename: NA

• Callability levels (somatic):

  • NO_COVERAGE: No coverage (zero sequencing depth)

  • LOW_COVERAGE: Sequencing depth from 1 to 27

  • CALLABLE: Sequencing depth from 28 to 232

  • HIGH_COVERAGE: Sequencing depth above 233

Sporadic cancers - actionable somatic mutations

Global distribution

Coverage per variant locus

Predictive

Callability

Gene

Locus name

Cancer type

Clinical significance

Level of evidence

Therapeutic context

Diagnostic

Callability

Gene

Locus name

Cancer type

Clinical significance

Level of evidence

Prognostic

Callability

Gene

Locus name

Cancer type

Clinical significance

Level of evidence

Somatic cancer hotspots

Global distribution

Coverage per locus

Callability

Gene

Locus name

Cancer type

Hotspot p-value