Proteomics and phosphoproteomics datasets

[simonfoster806]

Hi Liam Harley and I are looking onto phospho and proteomics datasets and have suggestions. Not sure how practical/easy/impossible to do... happy to chat further! ISSUES

• p values values show up as zero in proteomics data (need to be removed)

• stats bars at top need to be removed from plots (they are confusing...and all zeros anyway)

• y axes for proteomics should be 'Protein abundance'

• x axes for proteomics should be 'Condition'

• y axes for phosphoproteomics should be 'Phosphopeptide abundance'

• x axes for phosphoproteomics should be 'Phosphopeptide'

• Legend label for phosphoproteomics should be 'Condition'

• we tried titin (TTN) knowing that it has heaps of phosphosites - it melted the dashboard. oops. not sure what to suggest here? maybe a maximum entry cutoff? (the dashboard is not loading now...)

SUGGESTIONS:

• could we toggle between abundance values and log10(abundance) values for both proteomics and phospho?

[shimbalama]

p values values show up as zero in proteomics data (need to be removed) - yes if no data, but keep if data isn't significant stats bars at top need to be removed from plots (they are confusing...and all zeros anyway) - no, keep (make toggle)

all axes/legend - yes

could we toggle between abundance values and log10(abundance) values for both proteomics and phospho? - yes

[shimbalama]

done, with a compromises...