In sigven/oncoEnrichR: Cancer-dedicated gene set interpretation

Cancer hallmark evidence

• Each gene in the query set is annotated with cancer hallmarks evidence (Hanahan & Weinberg, Cell, 2011), indicating genes associated with essential alterations in cell physiology that can dictate malignant growth.
• Data has been collected from the Open Targets Platform, and we list evidence for each hallmark per gene, indicated as either being  promoted  , or  suppressed  

target_hm_shared <- crosstalk::SharedData$new(
  onc_enrich_report[['data']][['cancer_hallmark']][['target']])

crosstalk::bscols(
  list(
    crosstalk::filter_select("hallmark", "Cancer hallmark", target_hm_shared, ~hallmark)
  )
)

htmltools::br()
DT::datatable(target_hm_shared, 
              escape = F, 
              extensions=c("Buttons","Responsive"), 
              width = "100%",
              options=list(buttons = c('csv','excel'),dom = 'Bfrtip')) |>
  DT::formatStyle(columns = c("promotes"),
                  valueColumns = c('promotes'),
                  color = "white", 
                  backgroundColor = DT::styleEqual(
                  c(TRUE, FALSE), 
                  c("#005a32","#989898"))
  ) |>
   DT::formatStyle(columns = c("suppresses"),
                  valueColumns = c('suppresses'),
                  color = "white", 
                  backgroundColor = DT::styleEqual(
                  c(TRUE, FALSE), 
                  c("#800026","#989898"))
  )

cat('\n <ul><li>  <i> <span style="font-size: 105%; padding: 3px; background-color:#989898; color:white">&nbsp;&nbsp;<b>NO</b> query genes with cancer hallmark associations from Open Targets Platform were found. &nbsp;&nbsp; </span></i></li></ul>',sep='\n')
cat('\n')
cat('<br><br>')

{.unlisted .unnumbered .toc-ignore}

  Citation Note   : If you use the output of the Cancer hallmark evidence module of oncoEnrichR in your research, please cite the following resources and tools:

• Nakken et al., Int J Cancer, 2023
• Ochoa et al., Nucleic Acids Res, 2021
• Hanahan & Weinberg, Cell, 2011

sigven/oncoEnrichR documentation built on Aug. 31, 2023, 8:05 a.m.