Visual Evoked Potentials (VEPs) are used in clinical applications in ophthalmology, neurology and extensively in brain computer interface (BCI) research. BCI literature covers steady state VEP (SSVEP) and code modulated VEP (c-VEP) BCIs along with sophisticated methods to improve information transfer rates (ITR). There is a gap of knowledge regarding the VEP adaptation dynamics, physiological generation mechanisms and relation with BCI performance. A simple dual display VEP switch was developed to test signatures elicited by non-isochronic, non-singular, low jitter stimuli at the rates of 10, 32, 50 and 70 reversals per second (rps). Non-isochronic, low-jitter stimulation elicits Quasi-Steady-State VEPs (QSS-VEPs) that are utilized for simultaneous generation of transient VEP and QSS-VEP. QSS-VEP is a special case of c-VEPs and it is assumed that it shares the similar generators of the SSVEPs. Eight subjects were recorded and the performance of the overall system was analyzed by means of Receiver Operating Characteristic (ROC) curves, accuracy plots and ITRs. In summary QSS-VEPs performed better than transient VEPs. It was found that in general 32rps stimulation had the highest ROC area, accuracy and ITRs in general. To investigate the reasons behind this, adaptation dynamics of transient VEPs and QSS-VEPs at all four rates were analyzed and speculated. Moreover, QSS-VEPs were found to lead to higher accuracy by the template matching compared to SSVEPs at 10rps and 32rps.

Genome-wide sequencing data play an important role in evaluating the genomic level differences between superior and poor-quality crop plants and improving our understanding of molecular association with desired traits. We analyzed the obtained 92,921,066 raw reads from genome-wide resequencing of Cucumis sativus var. hardwickii through in-silico approaches and mapped to the reference genome of Cucumis sativus to identify the genome-wide single nucleotide polymorphisms (SNPs) and Single nucleotide variations (SNV). Here, we report 19, 74,213 candidate SNPs including 1,33,468 insertions and 1,43,237 deletions and 75 Indels genome-wide. A total of 2228224 identified variants were classified into four classes including 0.01% sequence alteration, 5.94% insertion, 6.37% deletion and 87.66% SNV respectively. These variations can be a major source of phenotypic diversity and sequence variation within the species. During the present study these variants were also utilized to resolve orthologous relationships among the genomes of C. melo and C. sativus var. hardwickii. Overall, the discovery of SNPs and genomic variants may help predict the plant response to certain environmental factors and can be utilized to improve crop plants' economically important traits.

Pathogenicity is unknown for the majority of human gene variants. For prioritization of sequenced somatic and germline mutation variants, in silico approaches can be utilized. In this study, 84 million non-synonymous Single Nucleotide Variants (SNVs) in the human coding genome were annotated using consensus Variant Effect Prediction (cVEP) method. An algorithm, implemented as a stacked ensemble of supervised learners, performed combination of the 39 functional, conservation mutation impact scores from dbNSFP4.0. Adding gene indispensability score, accounting for differences in the pathogenicities of the variants in the essential and the mutation-tolerant genes, improved the predictions. For each SNV the consensus combination gives either a continuous-value pathogenicity score, or a categorical score in five classes: pathogenic, likely pathogenic, uncertain significance, likely benign, benign. The provided class database is aimed for direct use in clinical practice. The trained prediction models were 5-fold cross-validated on the evidence-based categorical annotations from the ClinVar database. The rankings of the scores based on their ability to predict pathogenicity were obtained. A two-step strategy using the rankings, scores and class annotations is suggested for filtering and prioritization of the human exome mutations in clinical and biological applications of NGS technology.