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MetabolomicsDiversity in DNA: Identification of methylated deoxyadenosines in higher eukaryotes
Since the discovery that cytosine deoxynucleotides could be methylated (dC5m), not much is known in higher eukaryotes about modifications affecting other deoxynucleotides. Here, we now report that we detected N-6-methyl-deoxyadenosine (dA6m) not only in frog DNA, but also in other species including ...
2015-11-16 | MTBLS276 | MetaboLights
GenomicsFoxP3 Pulldown-seq (Nucleosomal DNA)
FoxP3 Pulldown-seq (Nucleosomal DNA)
PRJNA1018996 | ENA
ProteomicsProbing the Role of O-GlcNAcylation in Modulating Protein-DNA Interactions: Insights from a Proteomic Transcription Factor Response Element-Based Pulldown Screening Approach
O-linked β-N-acetylglucosamine (O-GlcNAc), a critical post-translational modification (PTM) predominantly found in the nucleus, plays a substantial role in regulating gene expression by modulating transcription factors (TFs) activity. Herein, by utilizing a pulldown screening approach termed as tand...
ORGANISM(S): Homo Sapiens 
2024-10-24 | PXD057128 |
GenomicsMBP-FoxP3 pulldown-seq on naked DNA
MBP-FoxP3 pulldown-seq on naked DNA
PRJNA973695 | ENA
ProteomicsDNA pulldown of PRDM16 promoter and measurement of LC/MS-MS
To further investigate the transcription cofactor of Smad3 that regulated the transcription of PRDM16, we conducted DNA pull-down assay. we treated HK-2 cells with TGF-β and extracted the nuclear proteins. And the nuclear proteins were incubated with streptavidin magnetic beads, and biotin-labeled D...
ORGANISM(S): Homo sapiens (Human) 
2025-07-14 | PXD044753 | Pride
Hk-2 cell line dna pull-down lc/ms-ms 
GenomicsPulldown DNA methylation study v2
Pilot study to set up sequencing protocols for targeted pulldown methylation profiling
EGAS00001000979 | EGA
GenomicsFoxP3 Pulldown-seq (Nucleosomal DNA)
To investigate the interactions between FoxP3 and chromatinized templates, particularly assessing whether FoxP3 can still bind significantly to TnG-repeat DNA, we conducted FoxP3 pulldown experiments using nucleosomal DNA. Consitent with the result using naked genomic DNA, the results highlighted Tn...
ORGANISM(S): Mus musculus 
2023-10-09 | GSE243605 | GEO
UnknownA model of pulldown alignments from SssI-treated DNA improves DNA methylation prediction.
Not available
S-EPMC6700779 | biostudies-literature
ProteomicsA quantitative proteomics tool to identify DNA-protein interactions in primary cells or blood
The interaction between transcription factors and genomic DNA forms the basis for spatio-temporal control of gene expression. Therefore, these interactions and their impact on disease and cellular fate are extensively studied on a global level, mainly using techniques based on next-generation sequen...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-03-01 | MSV000079550 | MassIVE
ProteomicsTeamwork of clustered low affinity κB sites and accessory factors regulates transcriptional strength of NF-κB RelA dimers
Non-consensus binding sites of transcription factors are often observed within the promoters and enhancers of various genes; however, their effect on transcriptional strength is unclear. Within the promoters and enhancers of NF-κB-responsive genes, we identified clusters of non- consensus κB DNA sit...
ORGANISM(S): Mus musculus (Mouse) 
2025-10-13 | PXD065004 | Pride
Transcription Cofactor Promoter Κb dna Nf-kappa b (nf-κb) 
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