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ProteomicsPEPPI-MS- and GELFrEE-fractionated E. coli MG1655 whole cell lysate
Supplemental Files accompanying manuscript “PEPPI-MS: polyacrylamide gel-based prefractionation for analysis of intact proteoforms and protein complexes by mass spectrometry”.
ORGANISM(S): Escherichia Coli Str. K-12 Substr. Mg1655 (ncbitaxon:511145) 
2020-04-08 | MSV000085258 | MassIVE
UnknownPEPPI-MS: Polyacrylamide-Gel-Based Prefractionation for Analysis of Intact Proteoforms and Protein Complexes by Mass Spectrometry.
Not available
S-EPMC8141340 | biostudies-literature
ProteomicsPassive elution of proteoforms from polyacrylamide gels combined with anion exchange purification for in-depth top-down analysis of the human low molecular weight proteome.
We developed a novel sample preparation method by combining Passively Eluting Proteins from Polyacrylamide gels as Intact species for MS (PEPPI-MS) fractionation with Anion-Exchange disc-assisted Sequential sample Preparation (AnExSP) purification, and evaluated its performance in TDP analysis by co...
ORGANISM(S): Homo sapiens (Human) 
2022-09-26 | PXD034353 | Pride
Sds-page Top-down Peppi Anion exchange Stagetip 
ProteomicsPEPPI-SP3: Robust and Simple Sample Prefractionation Workflow for Top-Down Proteomics
In this study, we developed a complete, robust, and simple sample preparation workflow named PEPPI-SP3 for top-down proteomics by combining PEPPI-MS with the magnetic bead-based protein purification approach used in SP3 (single-pot, solid-phase-enhanced sample preparation), now one of the standard s...
ORGANISM(S): Homo Sapiens (human) 
2025-01-23 | PXD056413 | JPOST Repository
ProteomicsPEPPI-SP3: Robust and Simple Sample Prefractionation Workflow for Top-Down Proteomics
Precise prefractionation of proteome samples is a potent method for realizing in depth analysis in top-down proteomics. PEPPI MS (Passively Eluting Proteins from Polyacrylamide gels as Intact species for MS), a gel-based sample fractionation method, enables high-resolution proteome fractionation bas...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000095992 | MassIVE
UnknownCombining SDS-PAGE to capillary zone electrophoresis-tandem mass spectrometry for high-resolution top-down proteomics analysis of intact histone proteoforms.
Not available
S-EPMC11647866 | biostudies-literature
ProteomicsGeLC-FAIMS-MS Workflow for In-Depth Middle-Down Proteomics
Middle-down proteomics is an analytical approach whereby protein samples are digested with proteases such as Glu-C to generate large peptides (>3 kDa) that are then analyzed by mass spectrometry. This method is useful for characterizing high-molecular-weight proteins that are difficult to detect by ...
ORGANISM(S): Homo sapiens (Human) 
2024-11-20 | PXD041358 | Pride
Glu-c digestion Proteoform Middle-down proteomics Lc-faims orbitrap mass spectrometry Peppi-ms Anexsp 
ProteomicsTop-down on MCF7 for CK8 identification
This study aimed to identify the CK8 proteoforms present in MCF7 cells for comparison with alternative technique.
ORGANISM(S): Homo sapiens (Human) 
2025-07-23 | PXD063523 | Pride
Cytokeratin 8 Mcf7 
ProteomicsCoupling SDS-PAGE to capillary zone electrophoresis-tandem mass spectrometry for high-resolution top-down proteomics analysis of intact histone proteoforms
Top-down mass spectrometry (TDMS) is a powerful tool to reveal the mechanism of epigenetic regulation by histones. However, the high similarity of histone variants and their highly dynamic post-translational modifications (PTMs) make them as on-going challenge analytes for separation with traditiona...
ORGANISM(S): Bos taurus (Bovine) 
2024-10-15 | PXD048061 | Pride
Sds-page Top-down proteomics Post-translational modifications Histone proteoform Cze-ms/ms 
ProteomicsStrategies to enhance the extraction of electrophoretically separated proteins from polyacrylamide gels and their application to mass spectrometry analyses (C4PR_LIV)
Polyacrylamide gel electrophoresis (PAGE) is a powerful technique for separating proteins extracted from complex biological samples. Unfortunately, the difficulty of recovering intact proteins in high yield from polyacrylamide matrices often limits further analyses. We discovered that staining prote...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) Drosophila melanogaster (Fruit fly) 
2020-07-13 | PXD010592 | Pride
Protein extraction Sds page 
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