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CellFateScout evaluates pathways with the Latent Variable framework that considers the joint expression of a whole pathway, whereas most of the network-based bioinformatics tools search for subnetworks centered around significantly differentially expressed genes.
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To further evaluate pathways and networks associated with the array genes, enrichment of gene ontology terms was evaluated [ 11].
22 A further evaluating pathways for chronic obstructive airway disease, congestive cardiac failure, myocardial infarction and pneumonia had similar conclusions.
We used a gene-set enrichment analysis (GSEA) to evaluate pathways associated with RANK or RANKL expression using the hypergeometric probabilities as published previously [ 19].
Carbon-13 containing metabolites such as pyruvate, bicarbonate, and glutamine can evaluate pathways that involve lactate, hydrogen ion, and glutamine metabolism [ 56].
Most recently, Liu et al. (2007) published a sophisticated method, called 'Gene Network Enrichment Analysis', which is similar to standard 'GSEA' and applies hypothesis testing to evaluate pathways.
Phenotype microarrays (PM) have been developed in order to evaluate pathways that contribute to energy production and cell sensitivity to different environmental factors, including any kind of stress, including bacterial infection.
Clinicians will order tests that evaluate pathway activity as well as mutational status and will apply these results in real-time in the clinic.
Traditionally, analytical methods like chromatography and mass spectrometry have been used to evaluate pathway variants, but such techniques cannot be performed with high throughput.
We are then able to evaluate pathway activation as a risk factor for patient survival.
To evaluate pathway based gene expression similarity measuring method, we conducted cell type classification test.
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