Sentence examples for many gene sets from inspiring English sources

Another advantage of enrichment analysis in Gitools includes the availability of many gene sets from generic and dedicated importers (i.e. Biomart, Gene Ontology, KEGG, IntOGen), which are available for many organism and many different types of gene identifiers.

Many gene sets involved in neuronal processes were up-regulated in the α9−/− animals.

Inspection of the results revealed the very prominent enrichment in ER− tumors of many gene sets relating to MYC and E2F activity.

Because many gene sets were examined, to control the rate of false positive findings by chance, we adjusted nominal p-values using the method of false discovery rate [54].

Since many gene sets are redundant, the effective number of pathways was calculated using an approach previously proposed to calculate the effective number of tests for genotype data [52].

Consistent with our observation of individual gene expression, the GSEA performed using curated gene sets showed that in forskolin treated basilar papillae many gene sets associated with cell cycle control are significantly enriched at various time points.

Because of the broad scope of many gene set collections and the large number of low-quality annotations, enrichment analysis results are frequently inaccurate and non-reproducible.

While many easy-to-use tools have been developed to facilitate pathway- or gene set-based analysis, inter-gene correlation within gene sets violates the independence assumption that underlies many gene set analysis methods.

Although many gene set-based approaches and gene-based approaches have been developed, all of them are based on the same rationale, i.e., the detection of gene-phenotype correlation.

This organization is not helpful for enrichment interpretation if too many gene-sets pass the significance threshold, as is the case here.

And the performance of comparable approaches on some specific dataset is highlighted in bolditalic Finally, above dataset-driven method comparison supplies new insights on the performance specificities of many gene-set approaches, especially for IEA; and also supports the importance and biological meaning of dysregulated pathways identified by IEA.