Plate map file format

The Proteograph Instrument Control Software (ICS) generates the plate map file (.csv). All columns are prefilled except for MS file name, which you must define.

Columns in a plate map file

Column	Description	NOTES
MS file name	The name of the MS data file, including extension (for example, `EXP20101_2020ms0321X83_A.raw`)
Sample name	A unique identifier for the sample, typically the biological sample name	a
Sample ID	A unique identifier for the sample	a
Well location	The column and row of the well the sample occupies
Nanoparticle	The nanoparticle name (nanoparticle 1–5)
Nanoparticle ID	The nanoparticle lot (kit ID)
Control	The control type: Process Control, Digestion Control, MPE Control, or Mass Spec Control
Control ID	The control lot
Instrument name	The name of the liquid handler that converted the samples into peptides
Date sample preparation	The date the method ended
Sample volume	The volume of sample in the indicated well	b
Peptide concentration	The concentration of peptide in the well	b
Peptide mass sample	The mass of peptide in the well	b
Recon volume	The volume of Peptide reconstitution buffer added to the well	b
Kit ID	The ID of the assay kit used to convert the samples into peptides
Plate ID	A unique identifier for the plate
Plate Name	A descriptive name for the plate

The sample name links the plate map and sample description files, while the sample ID groups the nanoparticles in an assay.
The file shows the numeric value only, without unit of measure.