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MetabolomicsBioaccumulation of therapeutic drugs by human gut bacteria: cross-feeding metabolite analysis (FIA-MS) (E.rectale;S.salivarius assays)

Bacteria in the gut can modulate the availability and efficacy of therapeutic drugs. Interactions at this level have only recently started to being systematically mapped and the main underlying mechanism proposed is chemical transformation of drugs by microbes (biotransformation). Here, we invest...

2021-07-20 | MTBLS1792 | MetaboLights
ProteomicsA Simple Cross-Linking/Mass Spectrometry Workflow to Study System-Wide Protein Interactions in Drosophila Embryos
We provide a cross-linking/MS workflow that can be applied to complex systems. The software tool MeroX 2.0 can be used to identify cross-linked peptide on a proteome-wide level. We applied the workflow to extracts of Drosophila embryos and identified 5,129 unique cross-linked residue pairs in biolog...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2019-07-09 | PXD012546 | Pride
Cross-linking Mass spectrometry Xlms Cxms Drosophila 
ProteomicsDevelopment of an sulfoxide-based, CuAAC-enrichable cross-linker
Cross-linking of BSA with a novel cross-linker. Modification of the cross-linker containing peptides with CuAAC-chemistry to attach a cleavable biotin-derivative. Enrichment with streptavidin-beads.
ORGANISM(S): Bos taurus (Bovine) 
2019-10-14 | PXD015080 | Pride
Cuaac Xl-ms Sulfoxide 
ProteomicsInferring Epitopes of a Polymorphic Antigen Amidst Broadly Cross-Reactive Antibodies Using Protein Microarrays: a Study of OspC Proteins of Borrelia burgdorferi
Epitope mapping studies aim to identify the binding sites of antibody-antigen interactions to enhance the development of vaccines, diagnostics and immunotherapeutic compounds. However, mapping is a laborious process employing time- and resource-consuming M-bM-^@M-^Xwet benchM-bM-^@M-^Y techniques o...
ORGANISM(S): Peromyscus leucopus 
2013-04-12 | E-GEOD-45996 | biostudies-arrayexpress
TranscriptomicsWidespread over-expression of the X chromosome in sterile F1 hybrid mice
We used a reciprocal cross of Mus musculus and M. domesticus in which F1 males are sterile in one direction and fertile in the other direction, in order to associate expression differences with sterility. Four different crosses were performed. A cross between two strains within each mouse species (M...
ORGANISM(S): Mus musculus musculus x M. m. domesticus 
2010-10-05 | E-GEOD-17684 | biostudies-arrayexpress
ProteomicsSingle Nucleotide Resolution RNA-Protein Cross-Linking/MS: Simple Extension of the CLIR-MS Workflow
RNA-protein interactions mediate a vast number of intracellular processes. CLIR-MS (cross-linking of isotope labeled RNA and tandem mass spectrometry) is a mass spectrometric technique that allows the identification of RNA-protein interaction sites at single nucleotide/amino acid resolution in a sin...
ORGANISM(S): Homo sapiens (Human) 
2021-11-04 | PXD024010 | Pride
Protein rna cross-linking clir-ms uv xl 
UnknownA genetically encoded aza-Michael acceptor for covalent cross-linking of protein-receptor complexes.
Not available
S-EPMC4227728 | biostudies-literature
ProteomicsEnsured auxin sensing by degron flexibility
Using a structural proteomics approach via chemical cross-linking combined with mass spectrometry (XL-MS), we have resolved SCFTIR auxin·AUX/IAA complex overall topology, and established the power of IDRs modulating auxin receptor assemblies.
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2020-05-11 | PXD015285 | Pride
Auxin Cross-linking Iaa12 Auxin receptor Xl-ms Idrs Indole-3-acetic acid Aux/iaas Iaa7 Scf-type e3 ubiquitin ligase Tir1 
ProteomicsInteractions between basic helix-loop-helix transcription factors and nucleosomes
In solution crosslinking mass spectrometry of transcription factors in complex with nucleosomes
ORGANISM(S): Homo sapiens (Human) 
2023-05-23 | PXD033181 | Pride
Dsso crosslinking xlinkx pd transcription factor nucleosome human 
ProteomicsStructure of the Plant Plastid-Encoded RNA Polymerase
In this study, the native Sinapis alba plastid-encoded RNA polymerase (PEP) complex was purified and cross-linking MS was used to help in its structure determination.
ORGANISM(S): Sinapis alba 
2024-03-01 | PXD045575 | Pride
Cross-linking Xlms Pep Polymerase Native protein purification 
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