Systems approaches to investigate the role of NF-κB signaling in aging
M Haga, M Okada - Biochemical Journal, 2022 - portlandpress.com
The nuclear factor-κB (NF-κB) signaling pathway is one of the most well-studied pathways
related to inflammation, and its involvement in aging has attracted considerable attention. As …
related to inflammation, and its involvement in aging has attracted considerable attention. As …
[HTML][HTML] Boolean modelling as a logic-based dynamic approach in systems medicine
Molecular mechanisms of health and disease are often represented as systems biology
diagrams, and the coverage of such representation constantly increases. These static …
diagrams, and the coverage of such representation constantly increases. These static …
Modularity of biological systems: a link between structure and function
This paper addresses two topics in systems biology, the hypothesis that biological systems
are modular and the problem of relating structure and function of biological systems. The …
are modular and the problem of relating structure and function of biological systems. The …
An engineered protein-phosphorylation toggle network with implications for endogenous network discovery
INTRODUCTION Synthetic biology applies engineering methodologies to biology to build
new functions into living cells. Through the assembly and characterization of engineered …
new functions into living cells. Through the assembly and characterization of engineered …
Towards DNA-damage induced autophagy: A Boolean model of p53-induced cell fate mechanisms
S Gupta, DA Silveira, JCM Mombach - DNA repair, 2020 - Elsevier
How a cell determines a given phenotype upon damaged DNA is an open problem. Cell fate
decisions happen at cell cycle checkpoints and it is becoming clearer that the p53 pathway …
decisions happen at cell cycle checkpoints and it is becoming clearer that the p53 pathway …
[HTML][HTML] Reconstructing Boolean network ensembles from single-cell data for unraveling dynamics in the aging of human hematopoietic stem cells
Regulatory dependencies in molecular networks are the basis of dynamic behaviors
affecting the phenotypical landscape. With the advance of high throughput technologies, the …
affecting the phenotypical landscape. With the advance of high throughput technologies, the …
Challenges and opportunities in network-based solutions for biological questions
Network biology is useful for modeling complex biological phenomena; it has attracted
attention with the advent of novel graph-based machine learning methods. However …
attention with the advent of novel graph-based machine learning methods. However …
Network analysis reveals that the tumor suppressor lncRNA GAS5 acts as a double-edged sword in response to DNA damage in gastric cancer
The lncRNA GAS5 acts as a tumor suppressor and is downregulated in gastric cancer (GC).
In contrast, E2F1, an important transcription factor and tumor promoter, directly inhibits miR …
In contrast, E2F1, an important transcription factor and tumor promoter, directly inhibits miR …
Dynamical analysis of a boolean network model of the oncogene role of lncRNA ANRIL and lncRNA UFC1 in non-small cell lung cancer
S Gupta, RF Hashimoto - Biomolecules, 2022 - mdpi.com
Long non-coding RNA (lncRNA) such as ANRIL and UFC1 have been verified as oncogenic
genes in non-small cell lung cancer (NSCLC). It is well known that the tumor suppressor …
genes in non-small cell lung cancer (NSCLC). It is well known that the tumor suppressor …
Challenges and opportunities for digital twins in precision medicine from a complex systems perspective
Digital twins (DTs) in precision medicine are increasingly viable, propelled by extensive data
collection and advancements in artificial intelligence (AI), alongside traditional biomedical …
collection and advancements in artificial intelligence (AI), alongside traditional biomedical …