Sentence examples for differentiated lists from inspiring English sources

This method will pool together the genes that have changed at either direction (e.g., highly or lowly expressed) into sample-level differentiated lists.

Instead of using summarized differentiated gene lists, SLDG lists are used to calculate enrichment levels of each term for each sample and a class-contrast based pathway-ranking method is then used to rank the most consistent and enriched pathways (or gene sets, GO terms).

In order to identify the biological themes embedded in such differentiated gene lists, the next step typically maps these genes to their pathways or networks.

As a consequence, pathway-level consistent enrichment of genes annotated in a gene set within each of these sample-level differentiated gene lists would be biologically relevant to the phenotype being contrasted in the classes under study.

The null hypothesis for SLEPR is that sample-level differentiated gene lists are random sets of genes with regard to their belonging to a particular sample group in a given class contrast.

Once the sample-level differentiated gene lists are sorted into individual files in a file folder or directory using WPS program interfaces and utilities of pathway pattern extraction pipeline described in a separate manuscript (Yi and Stephens unpublished work), enrichment scores can be computed in a batch mode for each of these gene lists and merged into a stanford format file.

In addition, approximately half of the differential miRNAs do not target any genes in the differentiated gene list.

We then determine the functional enrichment levels in any a priori defined gene sets for each derived sample-level differentiated gene list.

We found that, unlike the conventional ORA method [31], which usually uses a gene-level differentiated gene list, the SLEPR method appears to be quite resistant to the cutoff change effects.

The top 10 most differentiated loci are listed in Table S1.

Differentiated-cell gene lists (DGLs) were obtained in an analogous fashion using the clones reported to be downregulated in each study.