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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
MetabolomicsPrediction of complex phenotypes using the Drosophila melanogaster metabolome
Understanding the genotype-phenotype map and how variation at different levels of biological organization is associated are central topics in modern biology. Fast developments in sequencing technologies and other molecular omic tools enable researchers to obtain detailed information on variation at ...
2021-08-05 | MTBLS2060 | MetaboLights
MetabolomicsSARS-CoV-2 ORF7a Drives Mitochondrial Dysfunction via PDK4 Activation and Complex I Inhibition

SARS-CoV-2 reprograms host metabolism to promote viral replication and evade immune responses. While infection is known to impair mitochondrial function and enhance glycolysis, the role of viral accessory proteins in these alterations remains unclear. Here, we investigate the metabolic impact of ...

2026-07-09 | MTBLS13338 | MetaboLights
ProteomicsMetalloprotease SPRTN/DVC1 Orchestrates Replication-Coupled DNA-Protein Crosslink Removal
Cytotoxicity of DNA-protein crosslinks (DPCs) is ascribed largely to their ability to block the progression of DNA replication fork. DPCs are frequently occurring in cells, either as a consequence of metabolism or exogenous agents. The mechanism of DPCs removal is not completely understood. Here, we...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-29 | MSV000080743 | MassIVE
ProteomicsA quantitative proteomics tool to identify DNA-protein interactions in primary cells or blood
The interaction between transcription factors and genomic DNA forms the basis for spatio-temporal control of gene expression. Therefore, these interactions and their impact on disease and cellular fate are extensively studied on a global level, mainly using techniques based on next-generation sequen...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-03-01 | MSV000079550 | MassIVE
ProteomicsFlap endonuclease 1 repairs DNA-protein crosslinks via ADP-ribosylation
The protein composition of DNA-protein crosslinks (DPCs) induced by formaldehyde treatment of human cell lines was analyzed by mass spectrometry.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-06-14 | MSV000095039 | MassIVE
GenomicsChip-Seq of human jurkat cell line to investigate genome-wide mapping of in vivo protein-DNA interactions
In vivo protein-DNA interactions connect each transcription factor with its direct targets to form a gene network scaffold. To map these protein-DNA interactions comprehensively across entire mammalian genomes, we developed a large-scale chromatin immunoprecipitation assay (ChIPSeq) based on direct ...
ORGANISM(S): Homo sapiens 
2009-08-29 | E-GEOD-13047 | biostudies-arrayexpress
GenomicsThe Mediator complex subunit MED23 couples H2B mono-ubiquitination to transcriptional control and cell fate determination
The Mediator complex orchestrates multiple transcription factors with the Pol II apparatus for precise transcriptional control. However, its interplay with the surrounding chromatin remains poorly understood. Here, we analyze differential histone modifications between WT and MED23-/- (KO) cells and ...
ORGANISM(S): Mus musculus 
2015-09-16 | E-GEOD-59518 | biostudies-arrayexpress
TranscriptomicsA DNA polymerase ? accessory protein, Mcl1, is required for propagation of centromere structures in fission yeast
Specialized chromatin exists at centromeres and must be precisely transmitted during DNA replication. The mechanisms involved in the propagation of these structures remain elusive. Fission yeast centromeres are composed of two chromatin domains: the central CENP-ACnp1 kinetochore domain and flanking...
ORGANISM(S): Schizosaccharomyces pombe 
2008-07-22 | E-GEOD-11102 | biostudies-arrayexpress
TranscriptomicsInvolvement of a chromatin remodeling complex in damage tolerance during DNA replication
ATP-dependent chromatin remodeling complexes have been shown to participate in DNA replication in addition to transcription and DNA repair. However, the mechanisms of their involvement in DNA replication remain unclear. Here, we reveal a specific function of the yeast INO80 chromatin remodeling comp...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-20 | E-GEOD-18570 | biostudies-arrayexpress
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