Cancer Genes & Genetics Flashcards

1
Q

Hallmarks of Cancer

A

(6)

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2
Q

What is cancer?

A

Uncontrolled growth/proliferation of abnormal cells

A heterogeneous mixture of cells

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3
Q

What is the difference between hetero and homogeneous cancers?

A

Homogeneous tumours can be more easily eliminated by treatments, but in heterogeneous tumours, some resistant clones will survive cancer therapy selective pressures and repopulate the tumour. This means these cancers need combination therapies.

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4
Q

Steps in the formation of a tumour.

A
Tumourigenesis (Primary Tumour)
Angiogenesis
Detachment / Invasion
Intravasation
Migration / Transport
Extravasation
Micrometastasis
Macrometastasis (Secondary Tumour)
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5
Q

4 treatments of cancer

A
  • Surgical removal or radiation of primary tumour
  • Chemotherapy to limit spread and proliferation of tumour cells
  • Immunotherapy to stop immune evasion
  • Correct the dysregulated signalling pathways
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6
Q

The evidence that cancer is a genetic disease (5)

A
  • most carcinogens are also mutagens
  • it is not contagious
  • incidence increases with age (as does DNA damage, CI)
  • some cancers segregate in families
  • DNA repair gene defects increase cancer probability
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7
Q

Germline and somatic mutations

A

Germline - every cell in the body, including reproductive cells. Passed from parent to child and are less common.

Somatic - Acquired in a sporadic manner. Non-inheritable and occur from gene damage in a person’s lifetime.

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8
Q

What are oncogenes?

Example

A

Proto-oncogenes carry out normal functions in cell homeostasis.
Dominantly acting, gain a function when mutated.
Not inherited because active oncogenes affect germline development and cause lethality.
Promote cell growth/division
Only one copy needs to be mutated to have an effect.
Occurs through translocations, point mutations or gene amplification
EX - H-Ras - single base pair mutation causes overactivity in bladder carcinomas.

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9
Q

What are tumour suppressors?

Example

A

Recessively acting
Inherited in familial cancer syndromes
Mutations in tumour suppressors that usually function to prevent cell growth and proliferation, mutations turn these off.
Examples - APC in FAPC

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10
Q

What are gatekeepers, caretakers and landscapers?

A

Gatekeepers - classical tumour suppressor genes that act to directly restrain cell proliferation.
Caretakers - act indirectly to maintain the integrity of the genome.
Landscapers - act indirectly to control the environment in which cells grow. Creates a microenvironment to aid cancer growth.

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11
Q

What are DNA repair genes?

A

Indirectly involved with growth inhibition / differentiation.
Inactivation of these genes increases the amount of unrepaired DNA damage and accumulation of mutations in other parts of the genome.
Increased likelihood of damaging mutations occurring in other critical genes.

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12
Q

What is retinoblastoma and the two forms of it that can occur?

A

Retinoblastoma is the most common eye tumour seen in children.
Has inherited and sporadic forms.
Inherited = bilateral, diagnosed before 1yr and has an increased chance of secondary tumour.
Sporadic = unilateral, diagnosed at approx 2yrs, no secondary tumour chance.

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13
Q

What is the two-hit hypothesis?

How is this related to the inherited form of retinoblastoma?

A

2HH = When one mutation in an allele is passed down in the germline, only one sporadic mutation is needed for both the alleles to be mutated and the loss of tumour suppression.
Inherited retinoblastoma is autosomal dominant in transmission. Retinal cells grow very rapidly in early life, so the likelihood that a sporadic mutation occurs to cause the cancer when one is already mutated in the germline is much higher than two separate sporadic mutations.

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14
Q

What is loss of heterozygosity?

A

2 separate mutational events disrupting both alleles in a cell is unlikely to occur.
The second mutation in sporadic cancers is caused by a recombination event that leads to a loss of the wild type

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15
Q

What is haploinsufficiency?

A

Some tumour suppressor genes require both alleles to function correctly suppress oncogenesis. So one mutation is enough to deactivate.
EX - PTEN

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16
Q

What is the function of p53 and how is it inactivated in cancers?

A

p53 is a tumour suppressor and guardian of the genome. After DNA damage, it will induce cell cycle arrest and apoptosis.
Somatic p53 mutations are found in 50% of all human cancers.
p53 is functional as a tetramer. Only one monomer need to be mutated for loss of p53 function.
Bias towards missense mutations as deletions don’t produce a protein that counteracts the wild types.

17
Q

What is the cancer multi-step model?

A

Most cancers involve multiple acquired mutations. Age is a large factor in the incidence of cancer. Multiple oncogenes and tumour suppressors need to be mutated for cancer to arise.

18
Q

What is the cancer gene census and what are the 4 technologies that help detect cancer mutations?

A

Gene census = a Sanger collection of all known somatic cancer mutations.
1 - Cytogenetic, FISH, array-cGH - for large scale changes (chromosomal abnormalities)
2 - SNP Arrays - assesses million of single nucleotide polymorphisms.
3 - PCR / Sanger Sequencing - Sequencing of genes and mutational hotspots. Dideoxynucleotides in a chain termination method, fluorescent labelling / automated sequencing advancements.
4 - NGS - high resolution sequencing allows detection of previously unknown mutations.

19
Q

What is next generation sequencing?

A

Massively parallel sequencing of many templates immobilised on a flow cell.
Bases detected using reversible terminators that block 3’OH additions. Base detected, block cleaved and process continues until sequence obtained - ILLUMINA SEQ
Increased volume at a lower cost.

20
Q

What are driver and passenger mutations?

A

Driver - Contributes to oncognesis by conferring an advantage to the cell. Selected for in cancer evolution. ‘Cancer genes.’

Passenger - Don’t contribute to the development of cancer, but have occurred during tumour growth. Not selected for, ‘along for the ride.’
Cancers usually have about 20 drivers, but many passengers.

21
Q

How can you detect somatic mutations?

A

Compare databases of known germline variations and normal tissue sequencing to see any mutational differences.
Tumour tissue matched to normal tissue for comparison.

22
Q

Basics of cancer evolution.

A

Selective pressure from the microenvironment or selective pressures are provided to the cancer cells.
Some sub clones are able to survive and repopulate the tumour.
Creates a branched evolution structure.
New sub clones acquire new genetic and epigenetic changes.

23
Q

Chemo, aggressiveness of tumours and multi-therapy.

A

Chemotherapy acts a selective bottleneck, where the fittest subclones survive and dominate. Relapsed malignancies are more aggressive. Treatments need to aim to treat multiple mutations to get the route of the tumour.

24
Q

What are the limiting factors of cancer mutation sequencing?

A
  • Difficult to separate tumour form germline DNA so biopsies can be impure.
  • Cancer biopsies can provide limited DNA.
  • Difficult to distinguish driver from passenger mutations.
25
Q

What are single-cell technologies? Issues?

A

Using whole genome amplification and DNA sequencing from a whole single cell. Allows tracing of cell lineages.
Isolated rare cells is difficult and amplification can give allelic dropout.

26
Q

How can cell free DNA help with cancer mutation analysis?

A

ctDNA (circulating tumour DNA) is released after apoptosis. ctDNA can help see if patients are destined to relapse after surgery.
Done with liquid biopsies to monitor ctDNA levels in the blood.

27
Q

Why are precise genetic diagnoses of cancers needed for targeted therapies?
Example

A

Need all the underlying molecular causes.
DNA/RNA profiling can determine which cancer subtype is present and then leads to targeted therapies.
Herceptin - only usable for HER2 overxpression breast cancer subtype.