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ProteomicsProtease-resistant streptavidin for interaction proteomics
Streptavidin-mediated enrichment is a powerful strategy to identify biotinylated biomolecules and their interaction partners by mass spectrometry. Since contamination by streptavidin limits protein identification, we here present protease-resistant streptavidin beads (prS). Their application to diff...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2020-05-27 | PXD016576 | Pride
Streptavidin Affinity purification Mass spectrometry Dna pull down Chip sicap Lipid binding protein Bioid Membrane protein Chip Biotin 
ProteomicsProtease-resistant streptavidin for interaction proteomics
Streptavidin-mediated enrichment is a powerful strategy to identify biotinylated biomolecules and their interaction partners by mass spectrometry. Since contamination by streptavidin limits protein identification, we here present protease-resistant streptavidin beads (prS). Their application to diff...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2025-04-08 | PXD015858 | Pride
Lipid Mass spectrometry Interactors Streptavidin Membrane proteins Chip-sicap Biotinylation Bioid Chip Ceramide-binding proteins 
ProteomicsSingle-minded homolog 2 resides in the chromatin protein network of androgen receptor and modulates gene expression in prostate cancer cells Single-minded homolog 2 resides in the chromatin protein network of androgen receptor and modulates gene expression in prostate cancer cells
We investigated the composition of chromatin protein network around endogenous androgen receptor (AR) in VCaP castration resistant prostate cancer cells using recently developed chromatin-directed proteomic approach called ChIP-SICAP . The androgen-induced AR chromatin protein network contained exp...
ORGANISM(S): Homo sapiens (Human) 
2021-06-17 | PXD025193 | Pride
Smarca4 Sim2 Castration-resistant prostate cancer cell Chip-sicap Chromatin accessibility Gene expression Protein-protein interactions Chromatin Androgen signaling Chromatin-mediated interaction 
ProteomicsMulti-layered chromatin proteomics identifies cell vulnerabilities in DNA repair
DNA damage response (DDR) is instrumental for maintaining genome stability and its deregulation predisposes to carcinogenesis, while revealing attractive targets for innovative therapies. Chromatin governs the DNA repair process via the interplay among different layers consisting of DNA, histones po...
ORGANISM(S): Homo sapiens (Human) 
2023-02-20 | PXD027421 | Pride
Proteomics Hptms Ipoc Chip-sicap Dna damage foci Chromatin Dsb Ddr 
ProteomicsID3 Promotes Homologous Recombination via Non-transcriptional and Transcriptional Mechanisms and its loss confers Sensitivity to PARP
The inhibitor of DNA-binding 3 (ID3) is a transcriptional regulator that limits interaction of basic helix-loop-helix transcription factors with the DNA. ID3 expression is frequently deregulated in human cancers and its loss was shown to impact DNA repair. To understand the molecular mechanisms by w...
ORGANISM(S): Homo sapiens (Human) 
2025-04-08 | PXD023106 | Pride
Cancer Id3 Hdr Parpi Dsb 
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 
ProteomicsSUMOylation regulates chromatin protein network and accessibility at glucocorticoid receptor-binding sites
Glucocorticoid receptor (GR) is an essential transcription factor (TF), controlling metabolism, development and immune responses. SUMOylation regulates chromatin occupancy and target gene expression of GR in a locus-selective manner, but the mechanism of regulation has remained elusive. Here, we sho...
ORGANISM(S): Homo sapiens (Human) 
2021-09-08 | PXD015183 | Pride
Glucocorticoid receptor Proteomics Chromatin regulation Sumoylation Transcription factors 
ProteomicsID3 Deficiency Alters Chromatin Accessibility at DSB Sites and Enhances Vulnerability to HDAC Inhibition
The inhibitor of DNA-binding 3 (ID3) plays a crucial role in DNA double-strand break (DSB) repair. We previously reported that ID3 loss reduced chromatin accessibility at DNA repair gene promoters, yet its exact role in DNA repair via chromatin regulation remained elusive. Using the AID-DIvA cell sy...
ORGANISM(S): Homo sapiens (Human) 
2026-05-25 | PXD069605 | Pride
Id3 Chromatin accessibility Hdac Dsb Inhibition 
ProteomicsDeposition of onco-histone H3.3-G34W leads to DNA repair deficiency and activates cGAS/STING-mediated immune responses
Mutations in histone H3.3-encoding genes causing mutant histone tails are associated with specific cancers such as pediatric glioblastomas (H3.3-G34R/V) and giant cell tumor of the bone (H3.3-G34W). The mechanisms by which these mutations promote malignancy are not completely understood. Here we sho...
ORGANISM(S): Homo sapiens (Human) 
2025-04-08 | PXD047223 | Pride
H3.3 Onco-histone Dna repair Immune response G34w Cgas/sting 
ProteomicsARID1A regulates chromatin organization and establishment of epigenetic marks for DSB repair and transcription silencing
AT-rich interactive domain-containing protein 1A (ARID1A), a SWI/SNF chromatin remodeling complex subunit, is frequently mutated across various cancer entities. ARID1A contributes to DNA damage response pathways, and we previously reported that ARID1A loss is associated with mutational signatures li...
ORGANISM(S): Homo sapiens (Human) 
2025-04-08 | PXD046159 | Pride
Epigenetics Hr Arid1a Dsb Chromatin 
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