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MetabolomicsIDH1 Reprograms Nucleotide Metabolism by Inducing Chromatin Remodeling and DHODH Transcription to Drive Chemoresistance in Nasopharyngeal Carcinoma

Metabolic reprogramming under therapeutic stress may represent a targetable vulnerability for cancer treatment. Elucidation of the metabolic alterations linked to chemotherapy in nasopharyngeal carcinoma (NPC) could uncover potential therapeutic strategies. Using proteomics and transcriptomic pro...

2026-01-14 | MTBLS11531 | MetaboLights
MetabolomicsTFAM loss induces nuclear actin assembly upon mDia2 malonylation to promote liver cancer metastasis
The mechanisms underlying cancer metastasis remain poorly understood. Here, we report that TFAM deficiency rapidly and stably induced spontaneous lung metastasis in mice with liver cancer. Interestingly, unexpected polymerization of nuclear actin was observed in TFAM-knockdown HCC cells when cytoske...
2022-06-23 | MTBLS4307 | MetaboLights
ProteomicsA quantitative proteomic analysis of in vitro assembled chromatin
The structure of chromatin is critical for many aspects of cellular physiology and is considered to be the primary medium to store epigenetic information. It is defined by the histone molecules that constitute the nucleosome, the positioning of the nucleosomes along the DNA and the non-histone prote...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2016-01-27 | PXD002537 | Pride
Acetylation  affinity proteomics  chromatin function or biology  label-free quantification   macromolecular assemblages 
ProteomicsIn vitro chromatin assembly - A quantitative proteomic analysis of in vitro assembled chromatin
Here, we use LC-MSMS and SWATH-MS to describe the kinetics of in vitro assembled chromatin supported by an embryo extract prepared from preblastoderm Drosophila melanogaster embryos. This system allows easy manipulation of distinct aspects of chromatin assembly such as post-translational histone mod...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2016-01-27 | PXD003445 | Pride
Lc-msms Chromatin assembly Drosophila melanogaster 
Transcriptomicschromatin associated RNAs
RNA has been suggested to play a major role in the regulation of higher-order structures of chromatin. This study investigated chromatin-associated RNA (caRNA) in Drosophila melanogaster by applying high-throughput sequencing to RNA molecules that co-fractionate with chromatin. Using a cell-free in ...
ORGANISM(S): Drosophila melanogaster 
2014-06-19 | E-MTAB-1237 | biostudies-arrayexpress
ProteomicsHuman chromatin platforms for the study of transcription and RNA regulation
Here we describe tools to study the step-wise assembly of protein complexes on chromatin in a highly-controlled manner using reconstituted chromatin platforms and quantitative proteomic profiling. We profile the early steps in transcriptional activation and highlight the potential for understanding...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-05-15 | MSV000082363 | MassIVE
GenomicsCharacterization of genome-wide enhancer-promoter interactions reveals co-expression of interacting genes and modes of higher order chromatin organization
Recent epigenomic studies have predicted thousands of potential enhancers in the human genome. However, there has not been systematic characterization of target promoters for these potential enhancers. Using H3K4me2 as a mark for active enhancers, we identified genome-wide enhancer-promoter interact...
ORGANISM(S): Homo sapiens 
2012-01-24 | E-GEOD-32677 | biostudies-arrayexpress
ProteomicsDrosophila embryo extract assisted in vitro chromatin assembly in presence of foldamer
Drosophila preblastoderm embryo extract assisted chromatin assembly with or without 16mer DNA mimic. Pull down of chromatin fiber to reveal chromatin binders in the system.
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2023-09-07 | PXD039966 | Pride
Dna mimcs Qexactive hf Lc-ms In vitro chromatin assembly Drosophila embryo extract (drex) 
TranscriptomicsFactors that promote H3 chromatin integrity during transcription prevent promiscuous deposition of CENP-A(Cnp1) in fission yeast
Specialized chromatin containing CENP-A nucleosomes instead of H3 nucleosomes is found at all centromeres. However, the mechanisms that specify the locations at which CENP-A chromatin is assembled remain elusive in organisms with regional, epigenetically regulated centromeres. It is known that norma...
ORGANISM(S): Schizosaccharomyces pombe 
2015-02-19 | E-GEOD-66106 | biostudies-arrayexpress
TranscriptomicsCell type specificity of chromatin organization mediated by CTCF and cohesin
CTCF sites are abundant in the genomes of diverse species but their function is enigmatic. We used chromosome conformation capture to determine long-range interactions among CTCF/cohesin sites over 2 Mb on human chromosome 11 encompassing the β-globin locus and flanking olfactory receptor genes. Alt...
ORGANISM(S): Homo sapiens 
2011-01-13 | E-GEOD-26507 | biostudies-arrayexpress
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