A5036099552- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- RNA modifications and cancer
- RNA and protein synthesis mechanisms
- Circular RNAs in diseases
- Venomous Animal Envenomation and Studies
- Entomological Studies and Ecology
- Bacterial Genetics and Biotechnology
- DNA and Nucleic Acid Chemistry
- ATP Synthase and ATPases Research
- Gene Regulatory Network Analysis
- Kruppel-like factors research
- Sphingolipid Metabolism and Signaling
- Genomics and Chromatin Dynamics
- Cancer, Hypoxia, and Metabolism
- MicroRNA in disease regulation
- Yersinia bacterium, plague, ectoparasites research
Goethe University Frankfurt
2018-2023
German Centre for Cardiovascular Research
2019-2022
To assess the functional relevance and therapeutic potential of pro-angiogenic long non-coding RNA MANTIS in vascular disease development.RNA sequencing, CRISPR activation, overexpression, RNAi demonstrated that MANTIS, especially its Alu-element, limits endothelial ICAM-1 expression different types cells. Loss increased monocyte adhesion an ICAM-1-dependent manner. reduced binding SWI/SNF chromatin remodelling factor BRG1 at promoter. The was induced by laminar flow HMG-CoA-reductase...
Abstract DNA:DNA:RNA triplexes that are formed through Hoogsteen base-pairing of the RNA in major groove DNA duplex have been observed vitro, but extent to which these interactions occur cells and how they impact cellular functions remains elusive. Using a combination bioinformatic techniques, RNA/DNA pulldown biophysical studies, we set out identify functionally important triplex-forming long non-coding RNAs (lncRNA) human endothelial cells. The lncRNA HIF1α-AS1 was retrieved as top hit....
Long non-coding RNAs (lncRNAs) can act as regulatory which, by altering the expression of target genes, impact on cellular phenotype and cardiovascular disease development. Endothelial lncRNAs their vascular functions are largely undefined. Deep RNA-Seq FANTOM5 CAGE analysis revealed lncRNA LINC00607 to be highly enriched in human endothelial cells. was induced response hypoxia, arteriosclerosis regression non-human primates, post-atherosclerotic cultured cells from patients also propranolol...
Abstract RNA.DNA:DNA triple helix (triplex) formation is a form of RNA–DNA interaction which regulates gene expression but difficult to study experimentally in vivo. This makes accurate computational prediction such interactions highly important the field RNA research. Current predictive methods use canonical Hoogsteen base pairing rules, whilst biophysically valid, may not reflect plastic nature cell biology. Here, we present first optimization approach learn probabilistic model describing...
The transcription factor hypoxia-inducible 1 (HIF1) is an important driver of cancer and therefore attractive drug target. Acriflavine (ACF) has been suggested to inhibit HIF1, but its mechanism action unknown. Here we investigated the interaction ACF with DNA long non-coding RNAs (lncRNAs) function in human endothelial cells. promoted apoptosis reduced proliferation, network formation, angiogenic capacity. It also induced changes gene expression, as determined by RNA sequencing (RNA-seq),...
Chromatin-localized RNAs play diverse roles in gene regulation and nuclear architecture. Mapping genome-wide RNA-DNA interactions is possible using a variety of molecular methods, including bridging oligonucleotides to ligate RNA DNA proximity. While methods have progressed, robust computational method for calling biologically meaningful from these data lacking. Herein, we present RADIAnT, reads-to-interactions pipeline analyzing ligation data. RADIAnT calls against dataset-specific, unified...
Abstract Long non-coding RNAs (lncRNAs) can act as regulatory which, by altering the expression of target genes, impact on cellular phenotype and cardiovascular disease development. Endothelial lncRNAs their vascular functions are largely undefined. Deep RNA-Seq FANTOM5 CAGE analysis revealed lncRNA LINC00607 to be highly enriched in human endothelial cells. was induced response hypoxia, arteriosclerosis regression non-human primates also propranolol used induce arteriovenous malformations....
Abstract RNA:DNA:DNA triple helix (triplex) formation regulates gene expression, but is difficult to study experimentally in vivo. This makes accurate computational prediction of triplex highly important the field RNA research. Current predictive methods have used canonical Hoogsteen base pairing rules, which whilst biophysically valid, may not reflect plastic nature cell biology. Herein, we present TriplexAligner, a local alignment tool implementing probabilistic scoring matrices learned...
Abstract DNA:DNA:RNA triplexes that are formed through Hoogsteen base-pairing have been observed in vitro , but the extent to which these interactions occur cells and how they impact cellular functions remains elusive. Using a combination of bioinformatic techniques, RNA/DNA pulldown biophysical studies, we set out identify functionally important triplex-forming long non-coding RNAs (lncRNA) human endothelial cells. The lncRNA HIF1α-AS1 was retrieved as top hit. Endogenous reduced expression...