BIG DATA-2
Large-scale cancer initiatives that aim to molecularly characterise tumours.
- The Cancer Genome Atlas (TCGA)
- International Cancer Genome Consortium (ICGC)
- Cancer Cell Line Encyclopedia (CCLE)
- DepMap: The Cancer Dependency Map (CCLE, Genetic screens, Drug sensitives)
- Cosmic: Catalogue of Somatic Mutations in Cancer
Web portals to access and analyse the data.
Survival Analysis
Survival analysis is a collection of statistical procedures focused on the expected time until occurrence
of an event of interest.
Time to death.
Relapse-free survival rate.
The survival probability, also known as the survivor function S(t), is the probability that an individual
survives from the time origin (e.g. diagnosis of cancer) to a specific future time t.
The hazard, denoted by h(t), is the probability that an
individual who is under observation at a time t has an event
at the time.
The Kaplan-Meier (KM) method is used to estimate the
survival probability from observed survival times. Where:
ni is the number of subjects alive at the beginning of time
period ti and di is the number of event during time period ti.
The log-rank test is the most widely used method of
comparing two or more survival curves.
The null hypothesis is that there is n o difference in survival
between the two or more groups.
Compares the observed number of events each groups to
what would be expected if the null hypothesis were true (i.e,
if the survival curves were identical)
GEPIA
* Quick search by gene name.
* Box plots (tumour vs normal gene expression).
* Stage pots.
* Survival analyses.
Cancer Cell Line
CCLE project is a collaboration between the Broad Institute and the Novartis Institute for Biomedical
Research.
CCLE provides access to genomic data, analyses and visualization for over 1100 cell lines:
- Gene expression
- Copy number alterations
- Somatic mutations
Large-scale cancer initiatives that aim to molecularly characterise tumours.
- The Cancer Genome Atlas (TCGA)
- International Cancer Genome Consortium (ICGC)
- Cancer Cell Line Encyclopedia (CCLE)
- DepMap: The Cancer Dependency Map (CCLE, Genetic screens, Drug sensitives)
- Cosmic: Catalogue of Somatic Mutations in Cancer
Web portals to access and analyse the data.
Survival Analysis
Survival analysis is a collection of statistical procedures focused on the expected time until occurrence
of an event of interest.
Time to death.
Relapse-free survival rate.
The survival probability, also known as the survivor function S(t), is the probability that an individual
survives from the time origin (e.g. diagnosis of cancer) to a specific future time t.
The hazard, denoted by h(t), is the probability that an
individual who is under observation at a time t has an event
at the time.
The Kaplan-Meier (KM) method is used to estimate the
survival probability from observed survival times. Where:
ni is the number of subjects alive at the beginning of time
period ti and di is the number of event during time period ti.
The log-rank test is the most widely used method of
comparing two or more survival curves.
The null hypothesis is that there is n o difference in survival
between the two or more groups.
Compares the observed number of events each groups to
what would be expected if the null hypothesis were true (i.e,
if the survival curves were identical)
GEPIA
* Quick search by gene name.
* Box plots (tumour vs normal gene expression).
* Stage pots.
* Survival analyses.
Cancer Cell Line
CCLE project is a collaboration between the Broad Institute and the Novartis Institute for Biomedical
Research.
CCLE provides access to genomic data, analyses and visualization for over 1100 cell lines:
- Gene expression
- Copy number alterations
- Somatic mutations
