Search results for " Systems biology"

Positioning Europe for the EPITRANSCRIPTOMICS challenge

2018

WOS: 000444092300018 PubMed ID: 29671387 The genetic alphabet consists of the four letters: C, A, G, and T in DNA and C,A,G, and U in RNA. Triplets of these four letters jointly encode 20 different amino acids out of which proteins of all organisms are built. This system is universal and is found in all kingdoms of life. However, bases in DNA and RNA can be chemically modified. In DNA, around 10 different modifications are known, and those have been studied intensively over the past 20years. Scientific studies on DNA modifications and proteins that recognize them gave rise to the large field of epigenetic and epigenomic research. The outcome of this intense research field is the discovery t…

Combined Stress Conditions in Melon Induce Non-additive Effects in the Core miRNA Regulatory Network

2021

Climate change has been associated with a higher incidence of combined adverse environmental conditions that can promote a significant decrease in crop productivity. However, knowledge on how a combination of stresses might affect plant development is still scarce. MicroRNAs (miRNAs) have been proposed as potential targets for improving crop productivity. Here, we have combined deep-sequencing, computational characterization of responsive miRNAs and validation of their regulatory role in a comprehensive analysis of response of melon to several combinations of four stresses (cold, salinity, short day, and infection with a fungus). Twenty-two miRNA families responding to double and/or triple …

On the modeling of nonlinear interactions in large complex systems

2010

Abstract This work deals with the modeling of large systems of interacting entities in the framework of the mathematical kinetic theory for active particles. The contents are specifically focused on the modeling of nonlinear interactions which is one of the most important issues in the mathematical approach to modeling and simulating complex systems, and which includes a learning–hiding dynamics. Applications are focused on the modeling of complex biological systems and on immune competition.

Hepatocyte-specific deletion of the antiapoptotic protein myeloid cell leukemia-1 triggers proliferation and hepatocarcinogenesis in mice

2010

Regulation of hepatocellular apoptosis is crucial for liver homeostasis. Increased sensitivity of hepatocytes toward apoptosis results in chronic liver injury, whereas apoptosis resistance is linked to hepatocarcinogenesis and nonresponsiveness to therapy-induced cell death. Recently, we have demonstrated an essential role of the antiapoptotic Bcl-2 family member Myeloid cell leukemia-1 (Mcl-1) in hepatocyte survival. In mice lacking Mcl-1 specifically in hepatocytes (Mcl-1Δhep), spontaneous apoptosis caused severe liver damage. Here, we demonstrate that chronically increased apoptosis of hepatocytes coincides with strong hepatocyte proliferation resulting in hepatocellular carcinoma (HCC).…

Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis

2022

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Atti del X Convegno AISSA La valorizzazione del territorio agrario e il controllo del degrado del suolo

2012

Comprehensive estimation of input signals and dynamics in biochemical reaction networks

2012

Abstract Motivation: Cellular information processing can be described mathematically using differential equations. Often, external stimulation of cells by compounds such as drugs or hormones leading to activation has to be considered. Mathematically, the stimulus is represented by a time-dependent input function. Parameters such as rate constants of the molecular interactions are often unknown and need to be estimated from experimental data, e.g. by maximum likelihood estimation. For this purpose, the input function has to be defined for all times of the integration interval. This is usually achieved by approximating the input by interpolation or smoothing of the measured data. This procedu…

General Systems Theory and Systems Biology

2015

We should not imagine that Systems Biology was born yesterday, indeed von Bertalanffy was a well-known supporter of the need to approach biological entities from the notion of a system. There is a tradition, dating back to early times, calling for the study of living things as a whole. Holism is no stranger to modern Systems Biology and, likewise, von Bertalanffy supported the quantitative study of the whole from the interaction of its parts.

Mollusc shellomes: Past, present and future.

2020

13 pages; International audience; In molluscs, the shell fabrication requires a large array of secreted macromolecules including proteins and polysaccharides. Some of them are occluded in the shell during mineralization process and constitute the shell repertoire. The protein moieties, also called shell proteomes or, more simply, 'shellomes', are nowadays analyzed via high-throughput approaches. These latter, applied so far on about thirty genera, have evidenced the huge diversity of shellomes from model to model. They also pinpoint the recurrent presence of functional domains of diverse natures. Shell proteins are not only involved in guiding the mineral deposition, but also in enzymatic a…