C_N/C_S-calculator is a software that can comprehensively analyze the selection pressures of different genes within cancer genomes. Based on the relationship between a gene's selection pressure and its role in cancer progression, this method can be uesed to identify cancer driver genes and mini-driver genes.

To use it, please upload a mutation annotation format (.maf) file containing the somatic mutations to be studied. The file should include the following four tab-delimited columns in the specified order (with the same headers):

(1) Hugo_Symbol

      – The official gene symbol defined in HGNC database; for example, MXD3.

(2) Gene

      – Corresponds to the official gene id as used in the Ensembl 75: Feb 2014 (GRCh37.p13); for example, ENSG00000213347.

(3) Feature

      – The transcript which is most commonly used in TCGA, can be downloaded from here; for example, ENST00000423571.

(4) HGVSc

      – The allele change in the mutation site; for example, c.630G>A.

(5) HGVSp_Short

      – The amino acid change in the mutation site; for example, p.P210P.

(6) Variant_Type

      – The type of mutation at this site; for example, SNP. Note that the mutation will only be taken into account by the software for downstream statistical analysis when the value is "SNP".

(7) Consequence

      – The comsequence of mutation at this site; for example, synonymous_variant. Note that the mutation will only be taken into account by the software for downstream statistical analysis when the value is "synonymous_variant" or "missense_variant".

The example file:

Hugo_Symbol	Gene	Feature	HGVSc	HGVSp_Short	Variant_Type	Consequence
MXD3	ENSG00000213347	ENST00000423571	c.630G>A	p.P210P	SNP	synonymous_variant
MXD3	ENSG00000213347	ENST00000439742	c.553G>A	p.E185K	SNP	missense_variant
MXD3	ENSG00000213347	ENST00000513063	c.553G>A	p.E185K	SNP	missense_variant
MUC16	ENSG00000181143	ENST00000397910	c.22509A>G	p.K7503K	SNP	synonymous_variant
ALK	ENSG00000171094	ENST00000389048	c.3160G>A	p.G1054S	SNP	missense_variant

Runtime may vary depending on server load and the size of your dataset. Please provide your email address to receive the results once the process is finished. Alternatively, you can keep this window open and check back later, as the processing is expected to be quick.