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ProteomicsLineage-specific Protein Interactomes of the Hox Transcription Factor Ubx revealed by Close-Proximity Protein Biotinylation
Cell type diversity is controlled by transcription factors (TFs), which regulate specific yet flexible gene expression programs depending on the cellular environment. However, how sets of TFs work together to promote such diversity with high precision is still unknown. We used the Hox TF Ultrabithor...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2020-04-22 | PXD014481 | Pride
Close-proximity biotinylation Transcription Close-proximity partners Ubx Ppi Drosophila Interaction Interactome Bioid Ultrabithorax Proteomics Development Hox 
ProteomicsIdentification of the Tau aggresome in progressive supranuclear palsy by in situ biotinylation by antibody recognition
Here, we used an unbiased proteomic approach, which combines antibody-mediated proximity-detection of co-aggregated proteins together with mass spectrometry. Biotinylation by antibody recognition (BAR) is a recently developed method, by which a primary antibody recognises the target of interest in f...
ORGANISM(S): Homo sapiens (Human) 
2023-02-27 | PXD028237 | Pride
Tauopathy  aggresome  biotinylation 
TranscriptomicsEndosome-associated lc3b mRNA is translated in axons and the protein contributes to endosomal clearance
The primary objective of this project was to identify transcripts in close proximity to endosomes using the APEX-seq approach. To achieve this, we employed SH-SY5Y cells expressing APEX2-NES, APEX2-RAB5A, or 2xFYVE-APEX2 constructs. Biotinylation of RNAs was validated by dot blot, and biotinylated R...
ORGANISM(S): Mus musculus 
2026-09-01 | E-MTAB-15783 | biostudies-arrayexpress
UnknownIn Vivo Quantitative Estimation of DNA-Dependent Interaction of Sox2 and Oct4 Using BirA-Catalyzed Site-Specific Biotinylation.
Not available
S-EPMC7022529 | biostudies-literature
UnknownForce dependent biotinylation of myosin IIA by α-catenin tagged with a promiscuous biotin ligase.
Not available
S-EPMC4373798 | biostudies-literature
ProteomicsConfirmation of replication interactome of TopBP1 using proximity-dependent biotinylation MS
Goal of the Experiment is to confirm the replication interactome of TopBP1 using stabile 293 FlpIn cell lines expressing TopBP1 adapter fused to APEX2. Proteins in its close proximity will become biotinylated by APEX2, thereby enabling the pulldown of biotinylated proteins and thus, replication invo...
ORGANISM(S): Homo sapiens (Human) 
2024-05-21 | PXD040000 | Pride
Topbp1 Proximity-dependent biotinylation 
ProteomicsIdentification of the Tau aggresome in progressive supranuclear palsy by in situ biotinylation by antibody recognition reveals protein networks involved in energy metabolism, cytoskeletal dynamics and protein degradation systems.
Progressive supranuclear palsy (PSP) is a late-onset neurodegenerative disease defined pathologically by the presence of insoluble phosphorylated-Tau (p-Tau) in neurons and glia. Identifying co-aggregating proteins within p-Tau inclusions reveals important insights into processes affected by the agg...
ORGANISM(S): Homo sapiens (Human) 
2023-02-27 | PXD028770 | Pride
Tauopathy  aggresome  biotinylation 
UnknownAntibody-directed extracellular proximity biotinylation reveals Contactin-1 regulates axo-axonic innervation of axon initial segments.
Not available
S-EPMC10028829 | biostudies-literature
UnknownAntibody-directed extracellular proximity biotinylation reveals that Contactin-1 regulates axo-axonic innervation of axon initial segments.
Not available
S-EPMC10603070 | biostudies-literature
ProteomicsAnalysis of NF186 proximity proteomes across neuronal development using Nfasc antibodies in an antibody-directed proximity biotinylation strategy combined with mass spectrometry
Axon initial segment (AIS) cell surface proteins mediate key biological processes in neurons including action potential initiation and axo-axonic synapse formation. However, few AIS cell surface proteins have been identified. Here, we used antibody-directed proximity biotinylation to define the cell...
ORGANISM(S): Mus musculus (Mouse) 
2023-10-05 | PXD043805 | Pride
Nf186 Bar Neuronal development Proximity labeling 
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