VarElect

[…] and functional analysis tools. gene functionality was assessed using the following resources: david v6.7 [], cansar 2.0 [], and cosmic [] databases. gene-phenotype relationships were explored with varelect (phenotype assignation tool from genecards) [] and genemania []. information on gene expression localization was taken from the human protein atlas [] and the geo repository []. finally, […]

[…] genes were significantly associated with the phenotype (chst8, dio1, dmgdh, loxl1 and pxdnl). among these genes, dio1, in epistasis with rp11-648k4.2, was directly associated to the disease by the varelect genotype-phenotype association tool (tables , and fig. ). available information on gene expression in geo allowed us to discard chst8 and pxdnl genes because no difference among normal […]

[…] using biomart tool from the porcine ensembl database, sscrofa11.1. in order to identify potential candidate genes the function of genes within each of the selected regions (±1mb) were examined using varelect [], string [] babelomics [] and ncbi databases (growth, muscle development and fat metabolism related genes). moreover, additional information of gene expression data from a previous study […]

[…] 0 = 0.05, 250 randomizations), followed by post-hoc fisher lsd p<0.05 (in origin 2015g sr1, originlab), yielding 168 proteins (, , ). significantly regulated proteins were annotated (, ) using the varelect interpretation tool () by lifemap’s genecards suite (). cellular component ontologies enriched in the regulated proteome compared to the 5135 newly synthesized proteins as the background were […]

[…] project and esp6500 (). over 200 deleterious variants were identified in each of the five hlhs patients. further selection of these variants was carried out using the lifemap discovery tools [varelect, genecards, malacards (,)] and pubmed using the search terms: cardiomyocytes, hlhs, mitral stenosis, aortic stenosis, bicuspid valve, outflow tract problems, cardiac vasculogenesis, patent […]

[…] chemical effector molecules (leukotrienes), or important inhibitors or stimulators of defined transcriptional mechanisms of in vivo pathways (e.g. mtor), were selected using the genotyping programme varelect (lifemap sciences, inc.)., each microarray comparison between an intervention and control treatment was analysed separately to extract degs with a cut-off of p value <0.05 and an absolute […]

[…] by ≥15% across two independent technical replicates (table s1). the remaining 200 proteins were submitted to bioinformatics pathway analysis through ingenuity pathway analysis (ipa), david and varelect, revealing a striking enrichment of proteins (74 out of 200) belonging to mitochondrial pathways (; table s1). this provides substantial experimental support for the hypothesis […]