A5042425132- Circular RNAs in diseases
- MicroRNA in disease regulation
- RNA Research and Splicing
- RNA modifications and cancer
- Vibrio bacteria research studies
- Bioinformatics and Genomic Networks
- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Genetics, Bioinformatics, and Biomedical Research
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Genetics, Aging, and Longevity in Model Organisms
- Machine Learning in Bioinformatics
- Genetics and Neurodevelopmental Disorders
- Immune responses and vaccinations
- Microbial Metabolic Engineering and Bioproduction
- Biomedical Text Mining and Ontologies
- Cellular Mechanics and Interactions
- Neuroendocrine Tumor Research Advances
- CRISPR and Genetic Engineering
- Neuroinflammation and Neurodegeneration Mechanisms
- Child Nutrition and Water Access
- Genomics and Chromatin Dynamics
- Advanced Memory and Neural Computing
- RNA regulation and disease
Max Planck Institute for Biology of Ageing
2015-2020
Southeast University
2020
State Key Laboratory of Digital Medical Engineering
2020
University Hospital Heidelberg
2017
Heidelberg University
2017
Mayo Clinic
2013
Max Planck Society
2010
Tissue homeostasis requires maintenance of functional integrity under stress. A central source stress is mechanical force that acts on cells, their nuclei, and chromatin, but how the genome protected against unclear. We show stretch deforms nucleus, which cells initially counteract via a calcium-dependent nuclear softening driven by loss H3K9me3-marked heterochromatin. The resulting changes in chromatin rheology architecture are required to insulate genetic material from force. Failure mount...
Gut bacteria occupy the interface between organism and external environment, contributing to homeostasis disease. Yet, causal role of gut microbiota during host aging is largely unexplored. Here, using African turquoise killifish (Nothobranchius furzeri), a naturally short-lived vertebrate, we show that plays key in modulating vertebrate life span. Recolonizing middle-age individuals with from young donors resulted span extension delayed behavioral decline. This intervention prevented...
Abstract Motivation: Circular RNAs (circRNAs) are a poorly characterized class of molecules that have been identified decades ago. Emerging high-throughput sequencing methods as well first reports on confirmed functions sparked new interest in this RNA species. However, the computational detection and quantification tools still limited. Results: We developed software tandem, DCC CircTest. uses output from STAR read mapper to systematically detect back-splice junctions next-generation data....
Small intestine neuroendocrine tumors (SI-NETs) are the most common malignancy of small bowel. Several clinical trials target PI3K/Akt/mTOR signaling; however, it is unknown whether these or other genes genetically altered in tumors. To address underlying genetics, we analyzed 48 SI-NETs by massively parallel exome sequencing. We detected an average 0.1 somatic single nucleotide variants (SNVs) per 106 nucleotides (range, 0-0.59), mostly transitions (C>T and A>G), which suggests that stable...
Circular RNAs (circRNAs) belong to a recently re-discovered species of RNA that emerge during maturation through process called back-splicing. A downstream 5' splice site is linked an upstream 3' form circular transcript instead canonical linear transcript. Recent advances in next-generation sequencing (NGS) have brought circRNAs back into the focus many scientists. Since then, several studies reported are differentially expressed across tissue types and developmental stages, implying they...
ABSTRACT Gut bacteria occupy the interface between organism and external environment, contributing to homeostasis disease. Yet, causal role of gut microbiota during host aging is largely unexplored. Here, using African turquoise killifish ( Nothobranchius furzeri ), a naturally short-lived vertebrate, we show that plays key in modulating vertebrate life span. Recolonizing middle-age individuals with from young donors resulted span extension delayed behavioral decline. This intervention...
Abstract Summary: AGEpy is a Python package focused on the transformation of interpretable data into biological meaning. It designed to support high-throughput analysis pre-processed using either local based processing or API calls remote servers. In this application note we describe its different modules as well command line accessible tools aDiff , abed blasto david and obo2tsv . Availability: The open source freely available at: https://github.com/mpg-age-bioinformatics/AGEpy Contact:...
Circular RNAs (circRNAs) belong to a recently re-discovered species of RNA that emerge during maturation through process called back-splicing. A downstream 5’ splice site is linked an upstream 3’ form circular transcript instead canonical linear transcript. Recent advances in next-generation sequencing (NGS) have brought circRNAs back into the focus many scientists. Since then, several studies reported are differentially expressed across tissue types and developmental stages, implying they...
Summary: AGEpy is a Python package focused on the transformation of interpretable data into biological meaning. It designed to support high-throughput analysis pre-processed using either local based processing or API calls remote servers. In this application note we describe its different modules as well command line accessible tools aDiff, abed, blasto, david, and obo2tsv.
Circular RNAs (circRNAs) belong to a recently re-discovered species of RNA that emerge during maturation through process called back-splicing. A downstream 5’ splice site is linked an upstream 3’ form circular transcript instead canonical linear transcript. Recent advances in next-generation sequencing (NGS) have brought circRNAs back into the focus many scientists. Since then, several studies reported are differentially expressed across tissue types and developmental stages, implying they...
On 30 November 2016, over 70 junior researchers in computational biology from diverse countries met Mainz, Germany, for the 1st Student Symposium on Computational Genomics. Overall, symposium was a great success and featured four outstanding keynote lectures, nine selected student talks, 38 poster presentations. This report briefly highlights scientific outcomes activities of this student-driven event.
Abstract CircRNAs are a subgroup of RNAs which form circular molecule. During the splicing process 3’ splice donor loops back to covalent bond with an upstream 5’ acceptor instead downstream acceptor. The majority circRNAs non-coding isoforms protein coding genes showing tissue and time specific expression. Because have no cap nor poly-A tail, they degrade slower than their linear host genes. Only few studies were able show function for circRNAs. In this work we sequenced 23 samples from...