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In each case, only the first gene set was simulated to contain DE genes.
Finally, all but three TF classes corresponding to enriched TFBSs in the promoters of HD-Zip genes contain DE genes under dehydration and salt stress (Table 4).
We observed that the four HER2-amplified cell lines that contain de novo PIK3CA mutations develop resistance to lapatinib more rapidly than PIK3CA wild-type cells in chronic cell culture.
In addition to the proline biosynthesis pathways, the majority of the reactions within the valine and leucine degradation pathways contain DE genes in response to exogenous ABA and osmotic stress (Additional File 8).
As an alternate method to explore the influence of DE genes on pathway function, we analyzed the ratio of reactions in a given pathway that contain DE genes over all reactions within that pathway (Additional File 8).
Pathways for ethylene biosynthesis from methionine, gibberellin, JA, and brassinosteroid contain DE genes in 60% or more of their reactions (Additional File 8); some of these pathways also show enrichment based on Z-score pathway (Additional File 7) and GO analysis (Additional File 6), although not in every tissue/treatment combination.
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Some commercial software systems (e.g. Analyst's Notebook [37]) contain de-classifying options within their report creation capabilities.
Both databases contain de-identified health insurance enrollment information and claims data for inpatient and outpatient medical services as well as outpatient prescriptions.
Both the Commercial and HPM databases contain de-identified data that are in compliance with the Health Insurance Portability and Accountability Act (HIPAA) regulations; thus this analysis was exempt from Institutional Review Board approval.
The King of Comedy is easily the least watched film on this list, but it's the one that arguably contains De Niro's most fascinating performance.
The ex vivo incorporation of BMSCs into all bone-derived scaffold preparations substantially increased the mean extent and frequency of samples containing de novo bone formation over similar nonseeded controls, as determined by histological and histomorphometrical analysis.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com