Computational protocol: Oncogenic HSP60 regulates mitochondrial oxidative phosphorylation to support Erk1/2 activation during pancreatic cancer cell growth

Similar protocols

Protocol publication

[…] Clean reads were obtained by deleting the adaptor-only sequences and low-quality sequences. Comparison of the sequences was carried out by BLASTN against the 1000 Genomes Build 37 Decoy 5. The number of annotated clean reads of each gene was analyzed and normalized as reads per kilobase per million reads. DEGs were identified as those genes with an adjusted P < 0.05 using DESeq2. GO enrichment analysis of DEGs was implemented by the clusterProfiler R package in which gene length bias was corrected. Pathway enrichment analysis based on GO analysis of DEGs was used to identify significantly enriched metabolic pathways or signal transduction pathways using an adjusted P-value < 0.05 as the threshold for significance. […]

Pipeline specifications

Software tools BLASTN, DESeq2, clusterProfiler
Application Genome annotation
Chemicals Adenosine Triphosphate, Metformin