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snpStats specifications


Unique identifier OMICS_02091
Name snpStats
Interface Web user interface
Restrictions to use None
License GNU General Public License version 2.0
Computer skills Basic
Stability Stable
Maintained Yes

Publication for snpStats

snpStats citations


Genetic Insights Into Frailty: Association of 9p21 23 Locus With Frailty

PMCID: 5938407
PMID: 29765957
DOI: 10.3389/fmed.2018.00105
call_split See protocol

[…] t (p ≥ 0.01) (n = 79). Linkage disequilibrium (LD) plots were generated using Haploview 4.2 (). Haplotype blocks were defined based on the Gabriel criteria (). Haplotype analyses were performed using SNPStats software (). Functional prediction of the associated variants was carried out using various in silico approaches. Genotype-Tissue Expression portal (GTEx) was used to determine the significan […]


The association of polymorphisms in miRNAs with nonsmall cell lung cancer in a Han Chinese population

PMCID: 5901134
PMID: 29692628
DOI: 10.2147/CMAR.S154040

[…] e Hosmer–Lemeshow test and the Nagelkerke R2 were employed to establish the optimal model. The association between genotypes of the SNPs and NSCLC was analyzed using the inheritance model analysis of SNPStats software. Five models including the codominant, dominant, recessive, overdominant, and log-additive were analyzed. The best-fit inheritance model was determined using the Akaike information c […]


A Functional Polymorphism in the DRD1 Gene, That Modulates Its Regulation by miR 504, Is Associated with Depressive Symptoms

PMCID: 5912498
PMID: 29614853
DOI: 10.30773/pi.2017.10.16.1

[…] program (SPSS ver. 18; SPSS Inc., Chicago, IL, USA).For the analysis of allele and genotype frequencies, Hardy Weinberg equilibrium and the association of the DRD1 polymorphism with PHQ-9 scores, the SNPStats program was used []. This program employs a linear regression model, which was adjusted for age and gender, in order to find a possible association between the SNP in the DRD1 gene and PHQ-9 […]


New insights into the phylogenetics and population structure of the prairie falcon (Falco mexicanus)

BMC Genomics
PMCID: 5885362
PMID: 29618317
DOI: 10.1186/s12864-018-4615-z

[…] .e., D’ > 0.20) associated with two markers, in which case only one of the two markers was removed. We calculated allele frequencies and linkage disequilibrium using the programs GenAlEx 6.501 [] and snpStats [].Following Doyle et al. [], we quantified error rates associated with SNP genotyping using three replicate samples from 9 individuals (27 samples in total). We used GenAlEx 6.501 to estimat […]


A Novel Association of Polymorphism in the ITGA4 Gene Encoding the VLA 4 α4 Subunit with Increased Risk of Alzheimer's Disease

PMCID: 5892238
PMID: 29769839
DOI: 10.1155/2018/7623823

[…] nce intervals (95%CI) were calculated as well. Finally, multivariate logistic-regression analysis adjusted for gender, age, and APOE-ε4 positivity as possible influencing factors was performed by the SNPstats web software available at […]


A Comprehensive in Silico Analysis of Regulatory SNPs of Human CLEC7A Gene and Its Validation as Genotypic and Phenotypic Disease Marker in Recurrent Vulvovaginal Infections

PMCID: 5869923
PMID: 29616193
DOI: 10.3389/fcimb.2018.00065

[…] ribution of cases and controls. This statistical analysis was performed using MedCalc software v ( Inheritance models and hardy-Weinberg equilibrium were assessed by SNPStats (, a tool based on binary logistic regression analysis (Solé et al., ). The choice of best inheritance model for each SNP was made by selecting mod […]


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snpStats institution(s)
Catalan Institute of Oncology, IDIBELL, Epidemiology and Cancer Registry L'Hospitalet, Barcelona, Spain

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