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MetabolomicsFate and PPARγ and STATs-driven effects of the mitochondrial complex I inhibitor tebufenpyrad in liver cells revealed with multi-omics.
The biological effects of the pesticide and mitochondrial complex I inhibitor tebufenpyrad (TEBU) on liver cells were investigated by combining proteomics and metabolomics. Both cell culture media and cellular lysates were analyzed in dose-response and kinetic experiments on the HepaRG cell line. Re...
2024-02-07 | MTBLS4063 | MetaboLights
MetabolomicsOptimizing Deconvolution of Chimeric Fragmentation Spectra to reveal molecular structures of complex biological mixtures

Direct infusion mass spectrometry (DI-MS) offers a rapid, high-throughput analysis and, compared to liquid chromatography MS (LC-MS), a different analytical window into the composition of complex biological samples. However, the lack of chromatographic separation in DI-MS results in highly comple...

MTBLS13066 | MetaboLights
ProteomicsMass Spectrometric Analysis of Antibody-Epitope Peptide Complex Dissociation: Theoretical Concept and Practical Procedure of Binding Strength Characterization
We describe theoretical concepts and explain practical procedures of an electrospray mass spectrometry method, termed “Intact Transmission Epitope Mapping – Thermodynamic Weak-force Order (ITEM-TWO)”, by which can be determined apparent binding energies and dissociation constants of immune complex ...
ORGANISM(S): Homo sapiens (Human) Equus caballus (Horse) 
2020-10-29 | PXD021296 | Pride
Protocol Item-two Rnase s Offline esi-ms Troponin i epitope peptide-antitroponin i antibody complex Myoglobin Flag-peptide–antiflag antibody complex 
MetabolomicsLipid Data Analyzer: Analysis of a complex biological system from murine liver samples (Murine liver lipidome experiment)
Lipid Data Analyzer (LDA; http://genome.tugraz.at/lda2) provides automated and reliable annotation of lipid species and their molecular structures in high-throughput data from chromatography-coupled tandem mass spectrometry using embedded rule sets. Using various low- and high-resolution mass spectr...
2017-11-07 | MTBLS396 | MetaboLights
GenomicsGenome-wide analysis of H3.3 dissociation in mouse embryonic stem cells
Using Tet-inhibited expression of epitope-tagged H3.3 combined with ChIP-Seq we undertook genome-wide measurements of H3.3 dissociation rates across the ESC genome and examined the relationship between H3.3-nucleosome turnover and ESC-specific transcription factors, chromatin modifiers and epigeneti...
ORGANISM(S): Mus musculus 
2015-05-14 | E-GEOD-63641 | biostudies-arrayexpress
TranscriptomicsIdentification of differentially expressed genes during development of the zebrafish pineal complex using RNA sequencing
We describe a method for isolating RNA suitable for high-throughput RNA sequencing (RNA-seq) from small numbers of fluorescently labeled cells isolated from live zebrafish (Danio rerio) embryos without using costly, commercially available columns. This method ensures high cell viability after dissoc...
ORGANISM(S): Danio rerio 
2014-09-08 | E-GEOD-61202 | biostudies-arrayexpress
TranscriptomicsTU-tagging: cell type specific RNA isolation from intact complex tissues
We show that the combination of spatially restricted uracil phosphoribosyltransferase (UPRT) expression with 4-thiouracil (4TU) delivery can be used to label and purify cell type specific RNA from intact complex tissues. This method is useful for isolating RNA from cell types that are difficult to i...
ORGANISM(S): Drosophila melanogaster 
2010-06-19 | E-GEOD-15445 | biostudies-arrayexpress
ModelsIbrahim2008 - Mitotic Spindle Assembly Checkpoint - Dissociation variant
Ibrahim2008 - Mitotic Spindle Assembly Checkpoint - Dissociation variant The Mitotic Spindle Assembly Checkpoint ((M)SAC) is an evolutionary conserved mechanism. This model incorporates the perspectives of three central control pathways, namely Mad1/Mad2 induced Cdc20 sequestering ...
2024-09-02 | BIOMD0000000186 | BioModels
ProteomicsConjugation site characterization of antibody–drug conjugates using electron-transfer/higher-energy collision dissociation (EThcD)
Antibody–drug conjugates (ADCs) are formed by binding of cytotoxic drugs to monoclonal antibodies (mAbs) through chemical linkers. A comprehensive evaluation of the critical quality attributes (CQAs) of ADCs is vital for drug development but remains challenging owing to ADC structural heterogeneity ...
ORGANISM(S): Homo Sapiens 
2023-02-14 | PXD040111 |
GenomicsERK potentiates transactivation and oncogenic function of ERG by phosphorylation induced dissociation of PRC2 complex
ERK activates ERG-mediated prostate cancer specific gene expression program by phopshorylation induced dissociation of PRC2 complex
ORGANISM(S): Homo sapiens 
2018-02-13 | GSE86232 | GEO
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