Sentence examples for using the online analysis from inspiring English sources

Nucleotide and amino acid alignments, including comparisons of pilE and pilS loci from each isolate, were carried out using the online analysis tool MUSCLE available at EBI [ 69] or Clustal W (http://www.ebi.ac.uk/Tools/msa/clustalw2/) [ 70].

To identify activation of transcription factors (TFs) in AKs and SCCs, the DEGs from the limma analysis were investigated for over-represented TF binding sites (TFBSs) using the online analysis tool oPOSSUM [ 52].

Discriminatory power and the quantitative measure of congruence between the HRM10SNP and iPLEX20SNP methods and corresponding 95% confidence intervals (CI) were determined by calculating the Simpson's Index of Diversity and the adjusted Wallace coefficients respectively using the online analysis tool at http://darwin.phyloviz.net/ComparingPartitions/index.php?link=Tool.

Using the online syntenic analysis tool SynMap [21], we found that, compared to the average maize gene supported by full length cDNA evidence, classical maize genes, including those with known mutant phenotypes, are much more likely to possess conserved homologs at orthologous syntenic locations – true orthologs, in Japonica rice, sorghum, and brachypodium (Figure 3).

The genetic model of SNPs, pairwise linkage disequilibrium (LD) and haplotypes were calculated by using the online SNP analysis software (http://bioinfo.iconcologia.net/SNPstats).net/SNPstats

Strikingly, we observed two putative transcription factor binding sites in the -237/-206 region of LMO4 promoter, such as Sp1 and T3R, through prediction using the online promoter analysis tool Gene Regulation (http://www.gene-regulation.com).

Estimates were calculated using the online Survey Documentation Analysis from the Inter-university Consortium for Political and Social Research (http://dx.doi.org/10.3886/ICPSR32722.v3).org/10.3886/ICPSR32722.v3

The HIVDR mutational analysis was performed using the online "HIVdb Program: Sequence Analysis" program from Stanford University [ 11].

Data analysis was carried out using the online SABioscience Array data analysis software, and genes were identified as up- or down-regulated with a 2 fold or higher change in expression.

GO analysis was performed by using the online application PANTHER (Protein Analysis Through Evolutionary Relationships) [ 29].

We also analyzed the D. pulex genome for the various proteins known to be involved in RNAi [ 1] using the online tool PANTHER (Protein Analysis Through Evolutionary Relationships) that allows for identification of various protein homologs based on domain structures and evolution of protein function in various organisms [ 37].