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Table 1 Testing SBS frequency equality in healthy (H) and cancer (C) cells for the 17 mRNA selected by Brulliard, M. et al. (2007)

From: Increased frequency of single base substitutions in a population of transcripts expressed in cancer cells

Gene

COSMIC

L-SAGE

Tag-seq

Brulliard, M. et al. TI study using EST

GAPDH

0

C > H (3.67×10-115)

C > H (~0)

C > H

VIM

13

C = H

C > H (2.32×10-78)

C > H

ENO1

7

C > H (3.48×10-3)

C < H (0.76×10-2)

C > H

HSPA8

10

RT

C > H (9×10-9)

C > H

TPT1

0

C > H (4.05×10-4)

C > H (~0)

C > H

ATP5A1

5

C > H (1.51×10-15)

C > H (1.35x10-83)

C > H

FTL

0

RT

C > H (1.5×10 -7)

C > H

TPI1

3

C > H (1.14×10-52)

C > H (~0)

C > H

ALDOA

4

C = H

C < H (5.55×10-23)

C > H

LDHA

4

C > H (6.98×10-14)

C > H (1.84×10-3)

C > H

FTH1

5

RT

RT

C > H

RPS4X

2

RT

RT

C > H

RPL7A

1

3’ polyadenylated RNA record not available

 

C > H

RPS6

0

RT

RT

C > H

CALM2

1

RT

RT

C > H

TMSB4X

1

RT

RT

C < H

ALB

17

RT

RT

C < H

  1. C > H: greater SBS frequency in cancer. C < H: greater SBS frequency in healthy. C = N: SBS frequencies are not significantly different between H and C. RT: the 17 base NlaIII tag associated with this transcript was not present in either L-SAGE or Tag-seq lists of RT and therefore equality between SBS frequencies in H and C could not be tested. COSMIC: number of cancer related somatic mutations recorded by the COSMIC database. 3’ polyadenylated RNA record not available: the sequence recorded in RefSeq-rna does not have a 3’ polyadenylated boundary, therefore NlaIII tag cannot be determined.