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Standard peaks are noisy

Standard peaks are noisy

by | May 17, 2023 | , , ,

I am Using Sciex Qtrap 4500 for quantification of nitrosamines (NDMA&NDBA). I am facing issue with higher baseline intensity. When developed the method in APCI the basline was at about 5e4. but now even after cleaning the source (i.e. Changed capillary to new, Curtain plate & Corona needle cleaning, given blank injection overnight ), my base line decreased from 1e6 to 4 e5, but settled at 4 e5 from past 24 hours. can you suggest me how decrease my baseline intensity further to below 1e5. My standard peaks are like noise now.

Standard peaks are noisy

Loss the contact closure signal

by | May 17, 2023 | , , ,

our 7600 couple with nanoLC Ultimate 3000 via contact closure. it has run without any loss connection during the batch. Just yesterday, the last injection keep equilibrating system until the LC finished the gradient run. We closed the software and power off LC and MS then started again but it did not help. The Dionex engineer also checked their LC and triggerring cable found both are ok.

Standard peaks are noisy

ProteinPilot phosphopeptide library and DIA-NN

by | May 25, 2022 | , , , , ,

I have prepared a spectral library for a phosphopeptide enriched sample and I am generating my SWATH samples from similarly enriched samples. The problem is that when I use DIA-NN for the retention time alignment and quant, it doesn’t recognise the terminology of the spectral library annotated by ProteinPilot. DIA-NN recognises Unimod:21 for phosphorylation, but PP uses phospho(Tyr) etc. Other than changing the data dictionary to get around the mismatch, anyone have any suggestions for how I might resolve this? Thank you, Roz

Standard peaks are noisy

Sequential processing of multiple data-files in ProteinPilot

by | May 12, 2022 | , , , ,

I would like to use ProteinPilot 5.0.2 to process data-sets containing 16 wiff files acquired from fractionated peptides on a 6600 TripleTOF. A Precision T7910 workstation struggles to process four files in parallel and I would like to be able to queue sequential processing of individual files overnight. I currently use the ‘LC ‘ tab to load and process individual data-files but this leads to parallel processing. Is it possible to generate 16 .group files sequentially?

Setting up custom on-column nanoflow calibration for the ZenoTOF 7600 system using PepCalMix

Setting up custom on-column nanoflow calibration for the ZenoTOF 7600 system using PepCalMix

by | Apr 29, 2022 | , , , , ,

For nanoflow workflows using the ZenoTOF 7600 system and the standard nanoflow interface, on-column calibration is required and can be incorporated automatically into the SCIEX OS software acquisition batch. Here, step-by-step instructions are provided to set up a...

Using Scheduled Ionization to reduce system ion load for proteomics data acquisition

Using Scheduled Ionization to reduce system ion load for proteomics data acquisition

by | Apr 29, 2022 | , , , , , , , ,

When analyzing highly complex samples from biological matrices, there can be significant amounts of material that elute in the wash cycle of the LC run, depending on the up-front sample preparation used.  The Scheduled Ionization mode, available in both SCIEX OS...

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The SCIEX clinical diagnostic portfolio is For In Vitro Diagnostic Use. Rx Only. Product(s) not available in all countries. For information on availability, please contact your local sales representative or refer to https://sciex.com/diagnostics. All other products are For Research Use Only. Not for use in Diagnostic Procedures. Trademarks and/or registered trademarks mentioned herein are the property of AB Sciex Pte. Ltd. or their respective owners in the United States and/or certain other countries. © DH Tech. Dev. Pte. Ltd.