Second Edition, Version 2.03
April 2017
PlasmaDive
™ Mini Manual, © Biognosys AG, Switzerland
Page 20 of 22
Issue
Possible Cause
Recommended Solution
A major defect in
chromatographic system
if iRT calibration is not
linear through the whole
range
Please contact the technical
support of the LC
manufacturer.
No signal on LC-MS
when analyzing samples
Problem with sample
preparation
Prepare and analyze a
control sample with
Reference Peptide Mix
diluted in LC Buffer (keep the
dilution rate as in the Section
E of the protocol). If you see
a signal on LC-MS your initial
samples were not prepared
correctly.
Problem with the LC-MS
system
If you don’t see any signal on
your LC-MS after analyzing
the control sample from
above please contact the
technical support of your LC-
MS vendor.
SpectroDive
™ cannot
load runs from my
Thermo Scientific
instrument
The Thermo API might
not be properly
registered
Contact Thermo Scientific to
download the newest version
of the msFileReader API.
Run the installer in
administrator mode.
An error “iRT calibration
failed” appears when
loading my runs into
SpectroDive
™
The Reference Peptide
Mix was not spiked into
samples before LC-MS
analysis
Check the raw files in the
XCalibur software for iRT
peptides and if they are not
visible re-analyze the
samples by spiking-in the
Reference Peptide Mix
according to the protocol.
Further details on the iRT
peptides can be found at
www.biognosys.com/shop/irt-
kit
The raw files are
corrupted
Transfer the raw files from
the instrument again.
SpectroDive
™ did not
analyze my runs, I only
see grey run names in
the analysis tree
The Reference Peptide
Mix was not spiked into
samples as per protocol
before LC-MS analysis
Spike the Reference Peptide
Mix into the samples
(Section E) and repeat the
analysis.
