AbstractThis article presents data related to our another article entitled, Genotyping and differential expression analysis of inflammasome genes in sporadic malignant melanoma reveal novel contribution of CARD8, IL1B and IL18 in melanoma susceptibility and progression (W.C. Silva, T.M. Oshiro, D.C. Sá, D.D.G.S. Franco, C. Festa Neto, A. Pontillo, 2016) [2]. Data presented here refers to the distribution of selected inflammasome SNPs in a Brazilian case/control cohort. We have identified 4 inflammasome related Single Nucleotide Polymorphisms (SNPs) for CARD8 (rs6509365); IL1B (rs1143643) and IL18 (rs5744256 and rs1834481) related to melanoma susceptibility/protection. This data can serve as a potential prognostic marker in sporadic malignant melanoma

da Silva, Wanessa Cardoso

de Sá, Daniel Coelho

Festa Neto, Cyro

Franco, Dilcilea D.G.S.

Oshiro, Telma M.

Pontillo, Alessandra

Data in Brief

This article presents data related to our another article entitled, Genotyping and differential expression analysis of inflammasome genes in sporadic malignant melanoma reveal novel contribution of CARD8, IL1B and IL18 in melanoma susceptibility and progression (W.C. Silva, T.M. Oshiro, D.C. Sá, D.D.G.S. Franco, C. Festa Neto, A. Pontillo, 2016) [2]. Data presented here refers to the distribution of selected inflammasome SNPs in a Brazilian case/control cohort. We have identified 4 inflammasome related Single Nucleotide Polymorphisms (SNPs) for CARD8 (rs6509365); IL1B (rs1143643) and IL18 (rs5744256 and rs1834481) related to melanoma susceptibility/protection. This data can serve as a potential prognostic marker in sporadic malignant melanoma

Wanessa Cardoso da Silva

Telma M. Oshiro

Daniel Coelho de Sá

Dilcilea D.G.S. Franco

Cyro Festa Neto

Alessandra Pontillo

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Data on inflammasome gene polymorphisms of patients with sporadic malignant melanoma in a Brazilian cohort

Elsevier - Publisher Connector 

Data on inflammasome gene polymorphisms of patients with sporadic malignant melanoma in a Brazilian cohort 

Contents lists available at ScienceDirect
Data in Brief
Data in Brief 10 (2017) 33–37http://d
2352-34
(http://c
DOI
n Corr
E-mjournal homepage: www.elsevier.com/locate/dibData ArticleData on inﬂammasome gene polymorphisms
of patients with sporadic malignant melanoma
in a Brazilian cohort
Wanessa Cardoso da Silva a,n, Telma M. Oshiro a,
Daniel Coelho de Sá b, Dilcilea D.G.S. Franco b, Cyro Festa Neto b,
Alessandra Pontillo c
a Laboratory of Medical Investigation in Dermatology and Immunodeﬁciences - LIM 56, Department of
Dermatology, Faculty of Medicine, University of Sao Paulo, Avenida Dr. Eneas de Carvalho Aguiar,
470 – Prédio 2 - 3° andar – CEP:05403-000 - Cerqueira César, Sao Paulo, Brazil
b Department of Dermatology, Faculty of Medicine, University of Sao Paulo, Avenida Dr. Eneas de Carvalho
Aguiar, 500 – CEP: 05403-000 Cerqueira Cesar, Sao Paulo, Brazil
c Laboratory of Immunogenetics, Department of Immunology, Institute of Biomedical Sciences, University of
Sao Paulo, Avenida Prof. Lineu Prestes, 1730 – 05508-000 Cidade Universitaria, Sao Paulo, Brazila r t i c l e i n f o
Article history:
Received 13 September 2016
Received in revised form
13 October 2016
Accepted 15 November 2016
Available online 24 November 2016x.doi.org/10.1016/j.dib.2016.11.053
09/& 2017 The Authors. Published by Else
reativecommons.org/licenses/by/4.0/).
of original article: http://dx.doi.org/10.1016
esponding author.
ail address: wanessacardoso@yahoo.com.bra b s t r a c t
This article presents data related to our another article entitled,
Genotyping and differential expression analysis of inﬂamma-
some genes in sporadic malignant melanoma reveal novel
contribution of CARD8, IL1B and IL18 in melanoma suscept-
ibility and progression (W.C. Silva, T.M. Oshiro, D.C. Sá, D.D.G.S.
Franco, C. Festa Neto, A. Pontillo, 2016) [2]. Data presented here
refers to the distribution of selected inﬂammasome SNPs in a
Brazilian case/control cohort. We have identiﬁed 4 inﬂammasome
related Single Nucleotide Polymorphisms (SNPs) for CARD8
(rs6509365); IL1B (rs1143643) and IL18 (rs5744256 and
rs1834481) related to melanoma susceptibility/protection. This
data can serve as a potential prognostic marker in sporadic
malignant melanoma.
& 2017 The Authors. Published by Elsevier Inc. This is an open
access article under the CC BY license
(http://creativecommons.org/licenses/by/4.0/).vier Inc. This is an open access article under the CC BY license
/j.cancergen.2016.09.004
(W.C. da Silva).
W.C. da Silva et al. / Data in Brief 10 (2017) 33–3734Speciﬁcations TableS
M
T
H
D
E
E
D
Fig. 1. Linkage disequilib
showed D’/LOD values.ubject area Genetics
ore speciﬁc
subject areaImmunogeneticsype of data Tables, ﬁgures
ow data was
acquiredABI Prism 7300 Real Time PCR equipment (Applied Biosystems, Thermoscientiﬁc,
USA), SDS 2.3 software (Applied Biosystems, Thermoscientiﬁc, USA), R software
(www.r-project.org), Haploview softwareata format Raw, analyzed
xperimental
factorsDetermination of clinical data of patients, extraction of DNA from buffy coat and
genetic polymorphism parametersxperimental
featuresAnalysis of polymorphism in inﬂammasome genes in sporadic malignant mela-
noma patients and healthy controlsata source
locationSao Paulo, Brazilata accessibility The data is available with this articleD
Value of the data
 Presence or absence of a particular polymorphism in inﬂammasome genes can drive an individual´s
susceptibility to melanoma.
 This dataset provides some selected inﬂammasome related SNPs’ frequencies in a Brazilian case/
control melanoma cohort and its association with clinical outcomes.
 Comparison of this dataset with other cohort dataset can help to elucidate the contribution of
inﬂammasome genes in the development of and progression to sporadic malignant melanoma.1. Data
A Brazilian case/control SMM cohort was studied concerning frequencies of selected inﬂamma-
some SNPs in NLRP1, NLRP3, CARD8, IL1B and IL18 genes and minor allele frequencies (MAF) with
respective Hardy–Weinberg p-values were calculated.
Case/control analysis were performed and distribution of alleles for each selected SNP, as well as
Odd Ratios (OR), haplotypes, Linkage disequilibrium analysis were determined.rium results for single-nucleotide polymorphisms examined in case/control study. Haploview plot
Table 1
SNPs frequencies in case/control cohort. Minor allele frequencies (MAF) with respective Hardy–Weinberg p-values (HW p)
for studied SNPs are reported in case (SMM) and controls (HC). Hapmap project MAF (or 1000 Genome MAF where indicated)
for Caucasian and African population are included. MAF for SNPs studied by Verma et al., 2012a [1] are also included with
respective p-value for comparisons with SNPs frequencies in studied Brazilian cohorta.
Gene SNP ID Allele SMM HW p HC HW p CEU YRI SMM (Verma et al. [1]) HC (Verma et al. [1])
NLRP1 rs12150220 T 0.44 0.071 0.46 0.079 0.46 0.02 0.52 (0.020) 0.20 (o2exp-16)
rs2670660 G 0.51 0.180 0.46 0.485 0.35n 0.32n
rs11651270 C 0.50 0.059 0.41 0.216 0.47 0.50
NLRP3 rs35829419 A 0.04 1.0 0.04 1.0 0.06 na 0.08 (4.2exp-8) 0.06 (1.0exp-6)
rs10754558 G 0.41 0.878 0.38 0.070 0.36 0.23
CARD8 rs2043211 T 0.29 0.203 0.38 0.855 0.27 0.16 0.34 (0.524) 0.36 (0.026)
rs6509365 G 0.25 0.157 0.40 0.373 0.28 0.32
IL1B rs1143643 T 0.40 1.0 0.37 0.804 0.39 0.15
IL18 rs5744256 G 0.18 0.803 0.20 0.177 0.22 na
rs1834481 G 0.17 0.628 0.20 0.103 0.23 na
a data from 1000 Genome.
Table 2
Association results for inﬂammasome polymorphisms in sporadic malignant melanoma. Genotype frequencies are
reported as well as unadjusted p-values (p), p-values adjusted for age, sex and ethnicity (padj) and respective Odds Ratio (OR)
and 95% conﬁdence intervals (95% CI). Statistically signiﬁcant results (po0.005) are indicated in bold characters. SMM:
sporadic malignant melanoma; HC: healthy controls; Ref: reference genotype.
Gene SNP ID Genotypes SMM (n¼198) HC (n¼142) p OR (95%IC) padj OR (95%IC)
NLRP1 rs12150220 T/T 0.23 0.25 0.887 0.87 (0.48–1.58) 0.673 0.86 (0.43–1.69)
A/T 0.42 0.42 0.98 (0.58–1.64) 1.15 (0.64–2.08)
A/A 0.35 0.33 Ref Ref
rs2670660 G/G 0.28 0.19 0.145 1.54 (0.81–2.93) 0.166 1.69 (0.81–3.54)
A/G 0.45 0.53 0.87 (0.51–1.49) 0.91 (0.49–1.69)
A/A 0.27 0.28 Ref Ref
rs11651270 C/C 0.28 0.19 0.155 1.84 (0.98–3.44) 0.132 1.97 (0.97–3.99)
T/C 0.43 0.43 1.25 (0.73–2.12) 1.11 (0.61–2.01)
T/T 0.29 0.37 Ref Ref
NLRP3 rs35829419 A/A 0 0 0.911 – 0.810 –
C/A 0.07 0.07 1.05 (0.44 -2.54) 1.13 (0.42–3.02)
C/C 0.93 0.93 Ref Ref
rs10754558 G/G 0.17 0.18 0.310 1.14 (0.60–2.16) 0.467 1.20 (0.58–2.46)
C/G 0.48 0.40 1.46 (0.89- 2.40) 1.42 (0.81–2.48)
C/C 0.35 0.42 Ref Ref
CARD8 rs2043211 T/T 0.06 0.13 0.043 0.37 (0.16–0.83) 0.102 0.39 (0.15–0.98)
A/T 0.45 0.49 0.73 (0.46–1.18) 0.69 (0.40–1.19)
A/A 0.49 0.38 Ref Ref
rs6509365 G/G 0.08 0.18 3.1 exp-4 0.28 (0.13–0.58) 1.7 exp-4 0.35 (0.15–0.80)
A/G 0.33 0.44 0.48 (0.29–0.78) 0.41 (0.24–0.72)
A/A 0.59 0.38 Ref Ref
IL1B rs1143643 T/T 0.16 0.12 0.700 1.45 (0.59–3.56) 0.581 1.76 (0.56–5.53)
C/T 0.48 0.49 1.06 (0.58–1.95) 1.02 (0.46–2.27)
C/C 0.36 0.39 Ref Ref
IL18 rs5744256 G/G 0.03 0.06 0.589 0.58 (0.19–1.72) 0.235 0.39 (0.12–1.29)
A/G 0.29 0.28 1.03 (0.62 -1.70) 0.77 (0.44–1.34)
A/A 0.67 0.66 Ref Ref
rs1834481 G/G 0.05 0.07 0.755 0.64 (0.17 -2.36) 0.244 0.40 (0.09–1.86)
C/G 0.23 0.25 0.87 (0.43–1.74) 0.58 (0.27–1.28)
C/C 0.73 0.69 Ref Ref
W.C. da Silva et al. / Data in Brief 10 (2017) 33–37 35
Table 3
Association results for IL18rs5744256-rs1834481 haplotypes. Frequencies for SMM patients (case) and healthy donors
(control) as well as p-values are reported for resulted rs5744256-rs1834481 haplotypes. Only haplotypes with frequency
40.05 are included in GLM analysis. SMM: sporadic malignant melanoma; HC: healthy controls.
Haplotypes Rs5744256-rs1834481 Case/Control Frequencies p padj
C-A 0.79/0.80 ref ref
G-G 0.17/0.19 0.8647 0.8512
rare 0.04/0.01 0.1663 0.1381
Table 4
Association results for inﬂammasome polymorphisms in melanoma patients stratiﬁed for histological tumor type. Gene
symbol, polymorphism identiﬁcation number (SNP ID), p-values adjusted for sex, age and ethnicity are reported for three
comparisons: superﬁcial spreading melanoma (SSM) versus nodular melanoma (NM), SSM versus lentigo malignant melanoma
(LMM) and SSM versus melanoma “in situ”. Statistically signiﬁcant values are indicated in bold characters. nd: not determined.
Gene SNP ID SSM (n¼77)/ NM
(n¼30)
SSM (n¼77)/
LMM (n¼21)
SSM (n¼77)/
in situ(n¼29)
Dominant model
of inheritance
Recessive model
of inheritance
Recessive model
of inheritance
NLRP1 rs12150220 0.018 0.109 0.639
rs2670660 0.229 0.475 0.820
rs11651270 0.003 0.060 0.08
NLRP3 rs35829419 nd nd nd
rs10754558 0.303 0.020 0.952
CARD8 rs2043211 0.005 0.108 0.792
rs6509365 0.040 0.983 0.600
IL1B rs1143643 0.815 0.904 0.020
IL18 rs5744256 0.903 0.937 0.050
rs1834481 0.176 0.946 0.030
Table 5
Association results for inﬂammasome polymorphisms in melanoma patients according to invasiveness and skin type.
Gene symbol, polymorphism identiﬁcation number (SNP ID), multivariate analysis p-values adjusted for sex, age at diagnosis
and ethnicity are reported for SMM patients according to invasiveness (Breslow index), with less invasive (o2 mm) or more
invasive (Z2 mm) tumors; or with sun-sensitive or less sun-sensitive skin types. Statistically signiﬁcant values are indicated in
bold characters. nd: not determined.
Gene SNP ID Tumor invasiveness Skin type
Z 2 mm (n¼30)/
o2 mm(n¼133)
Sun-sensitive (n¼94)/Less
sun-sensitive (n¼57)
NLRP1 rs12150220 0.690 0.880
rs2670660 0.645 0.950
rs11651270 0.616 0.836
NLRP3 rs35829419 nd nd
rs10754558 0.537 0.986
CARD8 rs2043211 0.256 0.692
rs6509365 0.409 0.624
IL1B rs1143643 0.004 0.978
IL18 rs5744256 0.970 0.003
rs1834481 0.455 0.027
W.C. da Silva et al. / Data in Brief 10 (2017) 33–3736
W.C. da Silva et al. / Data in Brief 10 (2017) 33–37 37Patients were stratiﬁed according to histological tumor type, invasiveness and skin type were
represented (Fig. 1).2. Experimental design, materials and methods
Refer to the associated article [2] for detailed methods (Table 1–5).Acknowledgements
This work was supported by São Paulo Research Foundation, Brazil (FAPESP) (2013/06142-1; 2012/
09824-3). W.C.S. is recipient of a Fellowship from FAPESP, Brazil (2012/18448-5). A.P. is recipient of a
Fellowship from CNPq, Brazil.
We are thankful for all patients who participated in the study.Transparency document. Supporting information
Transparency data associated with this article can be found in the online version at http://dx.doi.
org/10.1016/j.dib.2016.11.053.References
[1] D. Verma, C. Bivik, E. Farahani, I. Synnerstad, M. Fredrikson, C. Enerback, I. Rosdahl, P. Soderkvist, Inﬂammasome poly-
morphisms confer susceptibility to sporadic malignant melanoma, Pigment Cell Melanoma Res. 25 (2012) 506–513.
[2] W. Silva, T. Oshiro, D. Sá, F.DDGS, C. Festa Netoand A. PontilloGenotyping and differential expression analysis of inﬂam-
masome genes in sporadic malignant melanoma reveal novel contribution of CARD8, IL1B and IL18 in melanoma sus-
ceptibility and progression. Cancer Genetics. Submitted.


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Data on inflammasome gene polymorphisms of patients with sporadic malignant melanoma in a Brazilian cohort

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