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GenomicsDNA-Protein Crosslink sequencing (DPC-seq) in RPE-1 cells treated with formaldehyde
Covalent DNA-protein crosslinks (DPC) are toxic DNA lesions that require repair by global-genome and replication-coupled pathways. How cells respond when RNA polymerases stall at DPCs during transcription is unknown. DPC-seq is new method for the genome-wide mapping of covalent DNA-protein adducts.
ORGANISM(S): Homo sapiens 
2024-02-24 | E-MTAB-12912 | biostudies-arrayexpress
ProteomicsTEX264 coordinates p97- and SPRTN-mediated resolution of topoisomerase 1-DNA adducts
Eukaryotic topoisomerase 1 (TOP1) regulates DNA topology to ensure efficient DNA replication and transcription. TOP1 is also a major driver of endogenous genome instability, particularly when its catalytic intermediate - a covalent TOP1-DNA adduct known as a TOP1 cleavage complex (TOP1cc) - is stabi...
ORGANISM(S): Homo sapiens (Human) 
2020-03-13 | PXD017239 | Pride
Protein-dna adducts Vcp/p97 Top1 Tex264 Dna repair Genome stability Sprtn Dna replication 
GenomicsSuppressing Proteasome Mediated Processing of Topoisomerase II DNA-Protein Adducts Preserves Genome Integrity
Suppressing Proteasome Mediated Processing of Topoisomerase II DNA-Protein Adducts Preserves Genome Integrity
PRJNA589537 | ENA
ProteomicsAnalysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry
Protein–DNA interactions are key to the functionality and stability of the genome. Identification and mapping of protein–DNA interaction interfaces and sites is crucial for understanding DNA-dependent processes. Here, we present a workflow that allows mass spectrometric (MS) identification of protei...
ORGANISM(S): Homo sapiens (Human) Xenopus laevis (African clawed frog) 
2020-10-20 | PXD020290 | Pride
Mass spectrometry Protein-dna interactions Uv-cross-linking 
GenomicsDNA-Protein Crosslink sequencing (DPC-seq) in RPE-1 cells treated with formaldehyde
DNA-Protein Crosslink sequencing (DPC-seq) in RPE-1 cells treated with formaldehyde
PRJEB73285 | ENA
UnknownRelative contributions of endogenous and exogenous formaldehyde to formation of deoxyguanosine monoadducts and DNA-protein crosslink adducts of DNA in rat nasal mucosa.
Not available
S-EPMC9887723 | biostudies-literature
ProteomicsRAD54L2 mediates a novel mechanism to counter TOP2-DNA adducts
The catalytic cycle of topoisomerase 2 (TOP2) enzymes proceeds via a transient DNA double-strand break (DSB) intermediate termed the TOP2 cleavage complex (TOP2cc), in which the TOP2 protein is covalently bound to DNA. Anti-cancer agents such as etoposide operate by stabilising TOP2ccs, ultimately g...
ORGANISM(S): Homo sapiens (Human) 
2024-01-26 | PXD046611 | Pride
Cancer Top2-dna adducts Etoposide Rad54l2 
TranscriptomicsThe minor groove-binding agent ELB-21 forms multiple interstrand and intrastrand covalent cross-links with duplex DNA and displays potent bactericidal activity against methicillin-resistant Staphylococcus aureus.
Objectives The antistaphylococcal pyrrolobenzodiazepine dimer ELB-21 forms multiple adducts with duplex DNA through covalent interactions with appropriately spaced guanine residues; it is now known to form interstrand and intrastrand adducts with oligonucleotide sequences of variable length. We dete...
ORGANISM(S): Staphylococcus aureus 
2011-04-15 | E-BUGS-115 | biostudies-arrayexpress
TranscriptomicsThe glucosinolate metabolite 1-methoxy-3-indolylmethyl alcohol induces a gene expression profile in mouse liver similar to the expression signature caused by known genotoxic hepatocarcinogens
Breakdown products of some glucosinolates M-bM-^@M-^S defense chemicals of Brassicales M-bM-^@M-^S induce detoxifying enzymes and demonstrate preventive activities against chemically induced tumorigenesis in animal models. However, other breakdown products are genotoxic. 1-Methoxy-3-indolylmethyl al...
ORGANISM(S): Mus musculus 
2015-02-18 | E-GEOD-61494 | biostudies-arrayexpress
TranscriptomicsGenotoxic, epigenetic, and transcriptomic effects of tamoxifen in mouse liver
Tamoxifen is a non-steroidal anti-estrogenic drug widely used for the treatment and prevention of breast cancer in women; however, there is evidence that tamoxifen is hepatocarcinogenic in rats, but not in mice. Additionally, it has been reported that tamoxifen may cause non-alcoholic fatty liver di...
ORGANISM(S): Mus musculus 
2014-10-11 | E-GEOD-62267 | biostudies-arrayexpress
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