paxdb-issues

🧩 Welcome to the PaxDb Issue Tracker — the central place to report, discuss, and track issues related to PaxDb, the Protein Abundance Database.

Here is the place to submit:

request to re-process proteomics data from ProteomeXchange

• File name annotation

_CTRL_, control, 4
_SULFUR_, sulfur_treatment, 4
Enzyme: trypsin
Acquisition: DDA

The above example annoates an experiment, consisting of 8 samples, e.g.

202108_CTRL_1
202108_CTRL_2
202108_CTRL_3
202108_CTRL_4
202108_SULFUR_1
202108_SULFUR_2
202108_SULFUR_3
202108_SULFUR_4

The group distinguishing file name snippets are _CTRL_ and _SULFUR_ And the experiment uses tryptic digestion and DDA acquisition mode.

You can find data request template but it is recommended to submit the data request issue through the PaxDb web interface.

report of data error or request update on genome annotation / name

• If you have more information of an experiment, you can suggest an update of the metadata or re-run with better / correct parameters.
• If you are expert studying a species and we use a not widely used identifiers, you can point us to the better sources or provide mappings.