Publications by authors named "K Timcheva"
Here, we present a detailed protocol to study the role of a human nuclear m6A RNA reader, YTHDC1, on chromatin-associated RNA targets. We describe steps for RNA extraction coupled to subnuclear fractionation to identify and study RNA-based regulations that take place in the chromatin-associated fraction. We then detail an RNA immunoprecipitation procedure adapted to identify chromatin-associated RNA targets.
View Article and Find Full Text PDFBackground: One-third of cancers activate endogenous synthesis of serine/glycine, and can become addicted to this pathway to sustain proliferation and survival. Mechanisms driving this metabolic rewiring remain largely unknown.
Methods: NKX2-1 overexpressing and NKX2-1 knockdown/knockout T-cell leukaemia and lung cancer cell line models were established to study metabolic rewiring using ChIP-qPCR, immunoblotting, mass spectrometry, and proliferation and invasion assays.
Article Synopsis
- Heat stress triggers significant changes in gene expression, primarily involving the protein YTHDC1, which interacts with N-methyladenosine (mA) RNA modifications.
- YTHDC1 relocates within the genome during heat stress, enhancing the expression of heat shock proteins (HSPs) and leading to altered transcript processing for many genes.
- The study suggests that YTHDC1's accumulation in specific nuclear stress bodies helps regulate and time the overall gene expression response to heat stress.
In eukaryotes, the heat shock response is orchestrated by a transcription factor named Heat Shock Factor 1 (HSF1). HSF1 is mostly characterized for its role in activating the expression of a repertoire of protein-coding genes, including the heat shock protein (HSP) genes. Remarkably, a growing set of reports indicate that, upon heat shock, HSF1 also targets various non-coding regions of the genome.
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