14 research outputs found
INVESTIGATIONS INTO THE MECHANISMS FOR "COLD" TRIGGERING OF SECONDARY ELECTRON-EMISSION CATHODE MAGNETRONS
BatMass: a Java Software Platform for LC–MS Data Visualization in Proteomics and Metabolomics
DeltaMass: Automated Detection and Visualization of Mass Shifts in Proteomic Open-Search Results
IMTBX and Grppr: Software for Top-Down Proteomics Utilizing Ion Mobility-Mass Spectrometry
Top-down
proteomics has emerged as a transformative method for
the analysis of protein sequence and post-translational modifications
(PTMs). Top-down experiments have historically been performed primarily
on ultrahigh resolution mass spectrometers due to the complexity of
spectra resulting from fragmentation of intact proteins, but recent
advances in coupling ion mobility separations to faster, lower resolution
mass analyzers now offer a viable alternative. However, software capable
of interpreting the highly complex two-dimensional spectra that result
from coupling ion mobility separation to top-down experiments is currently
lacking. In this manuscript we present a software suite consisting
of two programs, IMTBX (“IM Toolbox”) and Grppr (“Grouper”),
that enable fully automated processing of such data. We demonstrate
the capabilities of this software suite by examining a series of intact
proteins on a Waters Synapt G2 ion-mobility equipped mass spectrometer
and compare the results to the manual and semiautomated data analysis
procedures we have used previously
Identification of modified peptides using localization-aware open search
Mass spectrometry-based proteomics is the method of choice for the global mapping of post-translational modifications, but matching and scoring peaks with unknown masses remains challenging. Here, the authors present a refined open search strategy to score all peaks with higher sensitivity and accuracy
IMTBX and Grppr: Software for Top-Down Proteomics Utilizing Ion Mobility-Mass Spectrometry
Top-down
proteomics has emerged as a transformative method for
the analysis of protein sequence and post-translational modifications
(PTMs). Top-down experiments have historically been performed primarily
on ultrahigh resolution mass spectrometers due to the complexity of
spectra resulting from fragmentation of intact proteins, but recent
advances in coupling ion mobility separations to faster, lower resolution
mass analyzers now offer a viable alternative. However, software capable
of interpreting the highly complex two-dimensional spectra that result
from coupling ion mobility separation to top-down experiments is currently
lacking. In this manuscript we present a software suite consisting
of two programs, IMTBX (“IM Toolbox”) and Grppr (“Grouper”),
that enable fully automated processing of such data. We demonstrate
the capabilities of this software suite by examining a series of intact
proteins on a Waters Synapt G2 ion-mobility equipped mass spectrometer
and compare the results to the manual and semiautomated data analysis
procedures we have used previously