AFold-enrichment of significantly changed pathways (p < 0.05) between H2O2-treated ATG7 KOvsH2O2-treated WT HLE-B3 cells based on KEGG (Kyoto Encyclopedia of Genes and Genomes)-enrichment analysis. (red, up-regulated pathways; blue, down-regulated pathways).BHeatmap of differentially express...
To explore the conserved DNA-binding mechanism of Apaf-1 homologs from diverse species, we performed protein–DNA docking analyses using published 3D structures of Apaf-1-like molecules (PDB ID: 3JBT for human Apaf-1, PDB ID: 3SFZ for mouse Apaf-1, PDB ID: 5JUL forDrosophilaDark) and ...
gigas A list of candidate apoptosis and regulated cell death pro- teins previously identified in selected model organisms (D. melanogaster, H. sapiens, C. elegans) and molluscs was gathered via literature search and the Kyoto Encyclope- dia of Genes and Genomes (KEGG) reference apoptosis pathway...
(DEGs), GO/KEGG enrichment analysis, GSEA, immune cell infiltration analysis, and protein-protein interaction network construction were employed. Kaplan-Meier Cox regression and prognostic nomogram models were applied to calculate the clinical meaningfulness of HILPDA in LIHC patients. In order to ...
USA) were performed on the samples from the Q-CROC2 clinical trial in diffuse large B-cell lymphoma testing the efficacy of the deacetylase inhibitor panobinostat.53 We profiled gene expression data from responders and non- responders looking for enrichment in KEGG pathways (using c2.cp.kegg.v...
Pathway tools, such as KEGG, BioCarta, ProteinLounge, and Ingenuity were used to visualize gene-gene and protein-protein interactions essential to regulating apoptosis [59–61, 63]. The Entrez Gene database of the National Center for Biotechnology Information (NCBI, http://www.ncbi.nlm.nih.gov...
GO and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed with the R package “cluster Profiler” and showed that the JAK-STAT signaling pathway is negatively associated with BMAL1 expression (Fig. 5 A). Transcription factor analysis predicted that STAT3 is related to BMAL1 ...
GO and KEGG enrichment analysis InFigure 2C, genes that were differentially expressed at all time points were called continuous upregulated and downregulated genes, marked with yellow circle, the DEGs in this group undoubtedly play an important role during DTMUV infection. The Venn diagrams revealed...
The KEGG enrichment analysis of downregulated proteins also identified pathways related to “apoptosis” (Fig. 2e). In parallel, the enrichment analysis of gene ontology: component (GO: Component) focused on upregulated proteins unveiled a mitochondrial signature (Fig. 2f). Moreover, we searched fo...
C Univariate and multivariate analyses of clinical characteristics of AD patients and AK5 gene expression in relation to the risk of AD; D Gene differential analysis between AD and control samples; E DO enrichment analysis of AK5-related differential genes; F KEGG enrichment analysis made by AK5...