Nov 01, 2021
TIMSTOF Pro Crosslinking by Johannes Hevler; Albert Heck/ Richard Scheltema Labs
- Johannes Hevler1
- 1Utrecht University
- LCMSMethods.org Version 2
Protocol Citation: Johannes Hevler 2021. TIMSTOF Pro Crosslinking by Johannes Hevler; Albert Heck/ Richard Scheltema Labs. protocols.io https://dx.doi.org/10.17504/protocols.io.bznbp5an
License: This is an open access protocol distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
PhoX TIMSTOFPro crosslinking as described in: https://doi.org/10.1101/2021.03.26.437136
Created: November 01, 2021
Last Modified: November 01, 2021
Protocol Integer ID: 54691
Keywords: samples on timstof, linking sample, timstof pro, µl sample loop, proteomic, timstof, lc system
Abstract
crosslinking.m:
Method to run cross-linking samples on TimsTof pro instrument. Method and energies are specifically
optimized for PhoX cross-linker reagent (by Richard Scheltema and Markus Lubeck (Brucker))
Standard_DDA_PASEF_1.1sec_cycletime_2segm_1st_15min_nospectra.m:
Method for classical bottom-up (proteomics) experiments. Optimized for LC systems that are operated
without a trap and are euqipped with a 5 µL sample loop (flowrate 0.400 µL/min), as the Method is segmented: The
first 15 min of the method no spectra are saved. To further reduce the file size the noise filtering for Tims is turned on. (by Richard Scheltema and Markus Lubeck (Brucker))
Troubleshooting
crosslinking.m:
Method to run cross-linking samples on TimsTof pro instrument. Method and energies are specifically
optimized for PhoX cross-linker reagent (by Richard Scheltema and Markus Lubeck (Brucker))
Standard_DDA_PASEF_1.1sec_cycletime_2segm_1st_15min_nospectra.m:
Method for classical bottom-up (proteomics) experiments. Optimized for LC systems that are operated
without a trap and are euqipped with a 5 µL sample loop (flowrate 0.400 µL/min), as the Method is segmented: The
first 15 min of the method no spectra are saved. To further reduce the file size the noise filtering for Tims is turned on. (by Richard Scheltema and Markus Lubeck (Brucker))