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ProteomicsImmunoprecipitation of RNA-DNA hybrid interacting proteins in Trypanosoma brucei reveals conserved and novel activities, including in host immune evasion by antigenic variation
RNA-DNA hybrids are widespread epigenetic features of genomes that provide a growing range of activities in transcription, chromatin and DNA replication and repair. Understanding of these diverse functions has been advanced by characterising the proteins that interact with the hybrids, with all such...
ORGANISM(S): Trypanosoma brucei 
2024-01-26 | PXD042146 | Pride
R loops  dna-rna interactors 
TranscriptomicsThe SNF2 and RING domain proteins FRG1 and 2 are required for RNA-directed DNA methylation in Arabidopsis [mRNA-Seq]
DNA methylation in Arabidopsis thaliana is maintained by at least four different enzymes: MET1, CMT3, DRM2, and CMT2. However, DNA methylation is established exclusively by the enzyme DRM2, which acts in the RNA-directed DNA methylation (RdDM) pathway. Some RdDM components belong to gene families an...
ORGANISM(S): Arabidopsis thaliana 
2014-11-25 | E-GEOD-62799 | biostudies-arrayexpress
TranscriptomicsControlling for gene expression changes in transcription factor protein networks.
The development of affinity purification technologies together with mass spectrometric analyses of the purified protein mixtures (AP-MS) has been used both to identify new protein-protein interactions and to define the subunit composition of protein complexes. Transcription factor protein interactio...
ORGANISM(S): Homo sapiens 
2014-04-24 | E-GEOD-57027 | biostudies-arrayexpress
ProteomicsExpanding the substantial interactome of NEMO using protein microarrays
Signal transduction by the NF-kappaB pathway is a key regulator of a host of cellular responses to extracellular and intracellular messages. The NEMO adaptor protein lies at the top of this pathway and serves as a molecular conduit, connecting signals transmitted from upstream sensors to the downstr...
ORGANISM(S): Homo sapiens 
2010-06-19 | E-GEOD-19841 | biostudies-arrayexpress
UnknownRNA/DNA Hybrid Interactome Identifies DXH9 as a Molecular Player in Transcriptional Termination and R-Loop-Associated DNA Damage.
Not available
S-EPMC5976580 | biostudies-literature
TranscriptomicsA comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation
The inactive X chromosome (Xi) serves as a model to understand gene silencing on a global scale. Here, we perform identification of direct RNA interacting proteins? (iDRiP) to isolate a comprehensive protein interactome for Xist, an RNA required for Xi silencing. We discover multiple classes of inte...
ORGANISM(S): Mus musculus 
2015-06-19 | E-GEOD-67516 | biostudies-arrayexpress
UnknownA Two-Way Proteome Microarray Strategy to Identify Novel Mycobacterium tuberculosis-Human Interactors.
Not available
S-EPMC6448480 | biostudies-literature
GenomicsThe SNF2 and RING domain proteins FRG1 and 2 are required for RNA-directed DNA methylation in Arabidopsis
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Arabidopsis thaliana 
2014-11-25 | E-GEOD-62801 | biostudies-arrayexpress
ProteomicsUV-specific and -indepent interactors
The response to DNA damage-stalled RNA polymerase II (RNAPIIo) involves the assembly of the transcription-coupled repair (TCR) complex on actively transcribed strands. The function of the TCR proteins CSB, CSA and UVSSA and the manner in which the core DNA repair complex, including transcription fac...
ORGANISM(S): Homo sapiens (Human) 
2020-04-14 | PXD013572 | Pride
Tc-ner 
UnknownLet's make it clear: systematic exploration of mitochondrial DNA- and RNA-protein complexes by complexome profiling.
Not available
S-EPMC10602928 | biostudies-literature
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