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In addition, exomeSuite can perform homozygosity mapping and analyze the variant data of multiple unrelated individuals.
Specifically, comprehensive time variant data of teams that participated in crowdsourcing competitions on Kaggle were analyzed to gain insight into how solvers continually formulate strategies in light of performance feedback obtained through interim ranking.
In our comparison, the variant data of individuals of the 1000 genomes project [ 19] serve as a gold standard and we refer to them as the reference set.
A video tutorial on www.gene-talk.de illustrates how an exome dataset may be analyzed in GeneTalk: In a few easy steps, the variant data of a simulated patient with hyperphosphatasia with mental retardation syndrome are filtered down to the disease-causing mutation.
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For six of the eleven variants, data of around 8,000 individuals were available and for the remaining five variants, data of around 2,500 individuals were available.
However, the human genomics community is currently facing several challenges, including phenotyping, sample collection, sequencing strategies, bioinformatics analysis, biological validation of variant function, clinical interpretation and validity of variant data, and delivery of genomic information to various constituents.
Mining of the variant data revealed a total of 2395 polymorphic restriction sites, the most abundant being those revealed by TaqI (438), AluI (401), RsaI (381), DpnII (321), HinfI (281) and HaeIII (147).
Use of these tools facilitates integration of LRG data variant data in dbSNP (NCBI Database of Genetic Variation) [ 24, 25].
Currently, demonstrating an actual effect on gene function of such variants is limited, but will be of importance as improving sequencing technologies provide larger amounts of variant data.
Direct submission of variant data by clinical laboratories makes data available that would not otherwise reach the public domain.
It optimizes storage and access of variant data (sparse matrices) and provides built-in analysis functions.
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