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. 2013 Dec 13;8(12):e83244. doi: 10.1371/journal.pone.0083244

Table 1. Summary of recurrently mutated genes in our cases and a comparison with previously published studies.

Genes Accession Variant nomenclature SIFT score Polyphen-2 score Case no6.
Published
number prediction prediction 1 2 3 4 5 6 7 Study
Nucleotide change4 Amino acid change consequences consequences 7
ESTABLISHED: NOTCH2 NM_024408 c.C7081T° p.Q2361X Damaging Truncating [7,8]
Genes c.6836delA§ p.H2279fs Truncating Truncating
recurrently MAP3K14 NM_003954 c.C200G* p. A67G Damaging Probably damaging [8]
mutated TNFAIP3 NM_006290 c.T1343A* p.M448K Tolerated Truncating [4,5,8]
in SMZL1 c.C1681T* p. P561S Tolerated Truncating
c.A328T* p. T110S Tolerated Truncating
MLL2 NM_003482 c.2507_2508insC p.Q836fs Truncating Truncating [8]
SPEN NM_015001 c.C5179T° p.Q1727X Tolerated Truncating [8]
c.10286_10289del§ p.3429_3430del Truncating Truncating
NOVEL: AMOTL1 NM_130847 c.G1270A* p.A424T Tolerated Benign [8]
Recurrent FAT4 NM_024582 c.G6628A* p.A2210T Tolerated Benign [8]
genes across FBXO11 NM_001190274 c.G1587C* p.W529C Damaging Truncating [8]
studies2 PLA2G4D NM_178034 c.23delG§ p.G8fs Truncating Truncating [8]
TRRAP NM_003496 c.367-10T>-^ Splicing5 Truncating Truncating [8]
USH2A NM_206933 c.G7553C* p.S2518T Tolerated Benign [8]
NOVEL: CBFA2T3 NM_175931 c.C464T* p.P155L Damaging Probably damaging Novel
recurrent c.G1445A p. S482N Damaging Probably damaging
genes in our study3 CREBBP NM_001079846 c.A4349G* p.Y1450C Damaging Truncating Novel

1 Identifies those genes that have previously been shown to be targeted by recurrent mutations in SMZL. 2 Shows those genes that were mutated in single SMZL cases in both our current study and in previously published work. 3 Shows the novel genes targeted by recurrent mutations in our study.

4 Identified non-synonymous (*), splice-site (^), frameshift (§) and stopgain (°) mutations

5 The TRRAP mutation in case 5 occurred within a splice-site and is predicted to resulted in aberrant splicing

6 Showed the presence (✓) and absence (white box) of each mutation in the patients in our series

7 Highlights the published studies that identified the mutations in each of the genes listed