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ProteomicsXL-MS data analysis with MeroX and XlinkX
Comparison of MeroX in different modes and XlinkX upon variation of database size based on DSBU linked BSA as test-dataset
ORGANISM(S): Bos taurus (Bovine) 
2020-11-17 | PXD021648 | Pride
Mass-spectromerty Dsbu Xlinkx Merox Crosslinking Bsa 
ProteomicsFast and Accurate Disulfide Bridge Detection
Recombinant expression of proteins, propelled by therapeutic antibodies, has evolved into a multi-billion-dollar industry. Essential here is quality control assessment of critical attributes such as sequence fidelity, proper folding, and post-translational modifications (PTMs). Errors can lead to di...
ORGANISM(S): Homo sapiens (Human) 
2024-04-08 | PXD046855 | Pride
Faims Disulfide Ethcd Mab Scrambling 
ProteomicsExtending MS Annika for MS2-MS3-based Cross-linking Workflows
Over the past few decades cross-linking mass spectrometry (XLMS) has become a powerful tool for identification of protein-protein interactions and for gaining insight into the structures of proteins in living cells, tissues, and organelles. The development of new crosslinkers, enrichment strategies ...
ORGANISM(S): Escherichia coli 
2023-08-13 | PXD041955 | Pride
Search engine Ms3 Cross-linking Xlms Protein-protein-interaction Ppi Crosslinker Xl-ms Bioinformatics Crosslinking 
ProteomicsElucidating PTEN Conformational Dynamics and Phosphatase Regulation via Integrative Modeling and Mutation Prediction
PTEN (Phosphatase and TENsin homolog deleted on chromosome ten) is a major tumor suppressor gene that is frequently mutated or lost under cancerous conditions. PTEN is a dual-specificity phosphatase that negatively regulates the PI3K/AKT/mTOR signaling pathway at the plasma membrane (PM). Its functi...
ORGANISM(S): Homo sapiens (Human) 
2025-06-09 | PXD059974 | Pride
Molecular dynamics Molecular modeling Molecular biology Conformational change Rasp stability prediction Crosslinking mass spectrometry (xl-ms) Alphamissense Clinical mutation Integrative structural modeling Phosphatase and tensin homolog (pten) 
ProteomicsEfficient and robust proteome-wide approaches for crosslinking mass spectrometry
Proteome-wide crosslinking of PC9 cell lysates with DSSO
ORGANISM(S): Homo sapiens (Human) 
2018-06-15 | PXD008418 | Pride
Xlinkx Xl-ms Dsso 
ProteomicsIn vitro crosslinking of PAX8 and PRDM3
MS crosslinking of PAX8 and PRDM3 using standard DSSO-based crosslinking
ORGANISM(S): Homo sapiens (Human) 
2021-03-09 | PXD021708 | Pride
Prdm3 Xlinkx Crosslinking-ms Pax8 
ProteomicsMimicked synthetic ribosomal protein complex for benchmarking cross-linking mass spectrometry workflows
The field of cross-linking mass spectrometry has matured to a frequently used tool for the investiga-tion of protein structures as well as interactome studies up to a system wide level. The growing com-munity generated a broad spectrum of applications, linker types, acquisition strategies and specia...
ORGANISM(S): Escherichia coli 
2022-05-24 | PXD029252 | Pride
Mass spectrometry Ribosome Fdr Crosslinking 
ProteomicsInteractions between basic helix-loop-helix transcription factors and nucleosomes
In solution crosslinking mass spectrometry of transcription factors in complex with nucleosomes
ORGANISM(S): Homo sapiens (Human) 
2023-05-23 | PXD033181 | Pride
Dsso crosslinking xlinkx pd transcription factor nucleosome human 
UnknownOptimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification.
Not available
S-EPMC5454533 | biostudies-literature
ProteomicsCross-linking MS of S. cerevisiae ORC bound to DNA and Cdc6
During DNA replication initiation, the Origin Recognition Complex (ORC) and Cdc6 co-associate on DNA to load replicative helicases onto origins of replication. We apply DSSO crosslinking mass spectrometry of reconstituted ORC-DNA-Cdc6 to identify interactions between different subunits and domains i...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-02-28 | PXD031033 | Pride
Cleavable Cid Xlms Xlinkx Crosslinking ms Dsso Phosphorylation Ms2_ms3 Orc 
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