From natural sources to synthetic derivatives: The allyl motif as a powerful tool for fragment-based design in cancer treatment

N Astrain-Redin, C Sanmartin… - Journal of Medicinal …, 2023 - ACS Publications
Since the beginning of history, natural products have been an abundant source of bioactive
molecules for the treatment of different diseases, including cancer. Many allyl derivatives …

Glycometabolic rearrangements–aerobic glycolysis in pancreatic ductal adenocarcinoma (PDAC): roles, regulatory networks, and therapeutic potential

Z Zhang, HJ Zhang - Expert opinion on therapeutic targets, 2021 - Taylor & Francis
Introduction Glycometabolic rearrangements (aerobic glycolysis) is a hallmark of pancreatic
ductal adenocarcinoma (PDAC) and contributes to tumorigenesis and progression through …

[HTML][HTML] Reconstructing Boolean network ensembles from single-cell data for unraveling dynamics in the aging of human hematopoietic stem cells

JD Schwab, N Ikonomi, SD Werle, FM Weidner… - Computational and …, 2021 - Elsevier
Regulatory dependencies in molecular networks are the basis of dynamic behaviors
affecting the phenotypical landscape. With the advance of high throughput technologies, the …

[PDF][PDF] Leveraging quantum computing for dynamic analyses of logical networks in systems biology

FM Weidner, JD Schwab, S Wölk, F Rupprecht… - Patterns, 2023 - cell.com
The dynamics of cellular mechanisms can be investigated through the analysis of networks.
One of the simplest but most popular modeling strategies involves logic-based models …

A systems biology approach to define mechanisms, phenotypes, and drivers in PanNETs with a personalized perspective

SD Werle, N Ikonomi, L Lausser… - npj Systems Biology …, 2023 - nature.com
Pancreatic neuroendocrine tumors (PanNETs) are a rare tumor entity with largely
unpredictable progression and increasing incidence in developed countries. Molecular …

Capturing dynamic relevance in Boolean networks using graph theoretical measures

FM Weidner, JD Schwab, SD Werle, N Ikonomi… - …, 2021 - academic.oup.com
Motivation Interaction graphs are able to describe regulatory dependencies between
compounds without capturing dynamics. In contrast, mathematical models that are based on …

Epigenetic regulation mechanisms of the cofilin-1 gene in the development and differentiation of bovine primary myoblasts

Y Sun, Y Ma, T Zhao, M Li, Y Mao, Z Yang - Genes, 2022 - mdpi.com
As the quality of beef products has received increasing attention, it is essential to explore the
underlying transcriptional and epigenetic mechanisms of meat traits. Our project uses …

[HTML][HTML] Cofilin activation in pancreatic acinar cells plays a pivotal convergent role for mediating CCK-stimulated enzyme secretion and growth

I Ramos-Alvarez, L Lee, RT Jensen - Frontiers in Physiology, 2023 - frontiersin.org
Introduction: The actin regulatory protein, cofilin plays a key signaling role in many cells for
numerous cellular responses including in proliferation, development, motility, migration …

[HTML][HTML] Identification of dynamic driver sets controlling phenotypical landscapes

SD Werle, N Ikonomi, JD Schwab, JM Kraus… - Computational and …, 2022 - Elsevier
Controlling phenotypical landscapes is of vital interest to modern biology. This task becomes
highly demanding because cellular decisions involve complex networks engaging in …

Logical modelling of molecular crosstalks for the prediction of complex phenotypes

N Ikonomi - 2023 - oparu.uni-ulm.de
Systems biology investigates the understanding of complex biological processes, such as
ageing or cancer, by integrating a holistic view, which is mostly unconsidered when …