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ProteomicsInfluence of bead chemistry and protein-to-bead ratio on the efficiency of solid-phase proteolysis
Optimization of an SP3 digestion workflow on human plasma samples. The performance of the SP3 workflow using beads with different surface chemistries (SpeedBeads and MagReSyn beads) was evaluated.
ORGANISM(S): Homo sapiens (Human) 
2026-02-24 | PXD065651 | Pride
Sp3 Plasma Digestion 
ProteomicsOn-bead vs FASP vs InGel sample preparation for LC-MS/MS
The aim of this project was to compare and optimize sample processing protocols up-stream of LC-MS/MS. We set out to create a protocol that is easier and less laborious to use with liquid handlers than FASP, but that generates comparable results as FASP or traditional in-gel digestion.
ORGANISM(S): Homo sapiens (Human) 
2018-07-19 | PXD005944 | Pride
On-bead digestion Gelfree Fasp Lc-ms/ms 
UnknownRapid Differential Detection of Abrin Isoforms by an Acetonitrile- and Ultrasound-Assisted On-Bead Trypsin Digestion Coupled with LC-MS/MS Analysis.
Not available
S-EPMC8157574 | biostudies-literature
ProteomicsMethylated-antibody affinity purification to improve proteomic identification of plant RNA polymerase Pol V complex and the interacting proteins
Affinity purification followed by enzymatic digestion and mass spectrometry has been widely utilized for the sensitive detection of interacting proteins and protein complexes in various organisms. In plants, the method is technically challenging due to the low abundance proteins, non-specific bindin...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2017-02-28 | PXD005422 | Pride
On-bead digestion Pol v complex Chemical cross-link Reductive methylation Ap-ms 
ProteomicsRefinement of paramagnetic bead–based digestion protocol for automatic sample preparation using an artificial neural network
Despite technological advances in the proteomics field, sample preparation still represents the main bottleneck in mass spectrometry (MS) analysis. Bead-based protein aggregation techniques have recently emerged as an efficient, reproducible, and high-throughput alternative for protein extraction an...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) Mus musculus (Mouse) Homo sapiens (Human) Escherichia coli Rattus norvegicus (Rat) 
2024-05-31 | PXD048358 | Pride
Bile Magnetic beads Protein aggregation Sp3 protein digestion Artificial neural network 
ProteomicsQuantitative assessment of the effects of trypsin digestion methods on immunoprecipitation-mass spectrometry-based protein-protein interaction analysis
Immunoprecipitation-mass spectrometry (IP-MS) has become the method of choice for discovering protein-protein interaction (PPI) under native conditions. The success of the IP-MS depends on the efficiency of trypsin digestion and recovery of the tryptic peptides for MS analysis. Several different pro...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) Homo sapiens (Human) 
2017-07-25 | PXD005984 | Pride
Rela interactome Trypsin digestion Protein-protein interaction 
ProteomicsQuantitative assessment of the effects of trypsin digestion methods on immunoprecipitation-mass spectrometry-based protein-protein interaction analysis - part2
Immunoprecipitation-mass spectrometry (IP-MS) has become the method of choice for discovering protein-protein interaction (PPI) under native conditions. The success of the IP-MS depends on the efficiency of trypsin digestion and recovery of the tryptic peptides for MS analysis. Several different pro...
ORGANISM(S): Homo sapiens (Human) 
2017-07-26 | PXD006739 | Pride
Protein-protein interaction Trypsin digestion Lc-ms/ms 
ProteomicsChemical acetylation of ligands and two-step digestion protocol for reducing co-digestion in affinity purification-mass spectrometry
We present an effective, fast and user-friendly method to reduce co-digestion of bead-bound ligands, such as antibodies or streptavidin, in affinity purification-mass spectrometry experiments. A short pre-incubation of beads with Sulfo-NHS-Acetate leads to chemical acetylation of lysine residues, ma...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2023-10-23 | PXD043709 | Pride
Chemical acetylation Immunopurification Streptavidin Ligand Affinity purification Sulfo-nhs-acetate Nanobody Gfp 
ProteomicsMultiplexed Antibody Glycosylation Profiling Using Dual Enzyme Digestion and Liquid Chromatography-Triple Quadrupole Mass Spectrometry Method
In this study, we used proteomics analysis to confirm the immunoglobulin purification efficiency from human plasma samples. Protein components of plasma, supernatant fraction after affinity purification, and the on bead digestion fraction were performed.
ORGANISM(S): Homo sapiens (Human) 
2024-01-22 | PXD047040 | Pride
Liquid chromatography  mass spectrometry  human immunoglobulin  n-glycosylation  antibody profiling 
ProteomicsHit-Gel: Streamlining in-gel protein digestion for high-throughput proteomics experiments.
Traditional in gel-digestion procedures require extensive sample handling, are prone to contamination and not compatible with high-throughput sample preparation. To address these shortcomings, we have modified the conventional in-gel digestion procedure for high-throughput proteomics studies. The mo...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2018-10-16 | PXD009510 | Pride
Large-scale In-gel digestion Proteomics Tryptic digest Fractionation Native protein complex Sample preparation High-throughput Lc-ms/ms 
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