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ProteomicsMapping protein-DNA interactions by UV femtosecond laser crosslinking and mass spectrometry analysis
Transcription factors (TFs) regulate target genes by specific interaction with DNA sequences. Detecting and understanding these interactions on molecular level is of fundamental interest in both biological and clinical context. Crosslinking mass spectrometry is a powerful tool to assist structure pr...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) Sus scrofa domesticus (domestic pig) 
2020-06-22 | PXD014898 | Pride
Femtosecond laser Uv Transcription factor Protein-dna crosslinking Mass spectrometry 
GenomicsAlignment and quantification of ChIP-exo crosslinking patterns reveal the spatial organization of protein-DNA complexes
Alignment and quantification of ChIP-exo crosslinking patterns reveal the spatial organization of protein-DNA complexes
PRJNA591557 | ENA
GenomicsDNA-protein Crosslinking Sequencing for Genome-wide Mapping of Thymidine Glycol
DNA-protein Crosslinking Sequencing for Genome-wide Mapping of Thymidine Glycol
PRJNA763568 | ENA
GenomicsAlignment and quantification of ChIP-exo crosslinking patterns reveal the spatial organization of protein-DNA complexes
Each protein within a regulatory complex associates with the genome by either binding DNA directly or by forming protein-protein interactions with DNA-bound proteins. In the chromatin immunoprecipitation (ChIP) assay, each protein’s unique mode of genomic association may be reflected by their patter...
ORGANISM(S): Saccharomyces cerevisiae 
2019-12-08 | GSE140923 | GEO
ProteomicsSpatiotemporal and global profiling of DNA-protein interactions enables discovery of low-affinity transcription factors
Precise dissection of DNA-protein interactions is essential for elucidating recognition basis, dynamics, and gene regulation mechanism. However, global profiling of weak and dynamic DNA-protein interactions remains a long-standing challenge. Here, we establish light-induced lysine (K) enabled crossl...
ORGANISM(S): Homo Sapiens 
2023-01-03 | PXD039229 |
ProteomicsIntegrative Threading of the DNA-PKcs Disordered Region with Crosslinking Restraints
Integrative structure modelling was applied to understand how auto-phosphorylation of the ABCDE cluster in DNA-PKcs can occur. We used crosslinking restraints to assign sequence to structurally unassigned helices in DNA-PKcs s in the largely disordered region containing the ABCDE cluster. Our final ...
ORGANISM(S): Homo sapiens (Human) 
2019-12-10 | PXD016639 | Pride
Crosslinking-ms Integrative modelling Dna-pkcs 
UnknownAlignment and quantification of ChIP-exo crosslinking patterns reveal the spatial organization of protein-DNA complexes.
Not available
S-EPMC7672471 | biostudies-literature
UnknownPhotocaged Quinone Methide Crosslinkers for Light-Controlled Chemical Crosslinking of Protein-Protein and Protein-DNA Complexes.
Not available
S-EPMC6917869 | biostudies-literature
UnknownChemical crosslinking extends and complements UV crosslinking in analysis of RNA/DNA nucleic acid-protein interaction sites by mass spectrometry.
Not available
S-EPMC12359043 | biostudies-literature
ProteomicsDNA-Protein Crosslinking Problem in Saccharomyces cerevisiae for methanol utilization
Formaldehyde-induced DNA-protein crosslinkings (DPCs) and large repeated DNA fragments suggest strategies for methanol detoxification and phenotype enhancement
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2026-01-07 | PXD064984 | Pride
Lc-ms Saccharomyces cerevisiae Methanol Dna-protein crosslinking 
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