Modelling gene regulatory networks: systems biology to complex systems
Draft literature review on approaches to modelling gene regulatory ...
Geard, Nicholas
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Metastatic niche shaped by host factors influences disseminated cancer cell fate
FEBS Letters, EarlyView.Metastasis is shaped not only by cancer cells but also by the environments they encounter. This review explores how factors such as aging, diet, the microbiome, lifestyle, and environmental exposures remodel organ‐specific niches in the lung, liver, bone, and brain, influencing where metastatic cells survive, remain dormant, or grow, and ultimately ...
Gwennan Delyth Ward +2 more
wiley +1 more source
Lysyl oxidase (LOX)‐mediated remodeling of the extracellular matrix
FEBS Letters, EarlyView.The lysyl oxidase (LOX) family of enzymes drives extracellular matrix remodeling by oxidizing collagen, elastin, and fibronectin, promoting covalent cross‐link formation. This activity regulates tissue architecture and mechanical properties, while its dysregulation contributes to fibrosis, cardiovascular disease, glaucoma, connective tissue disorders ...
Fernando Rodríguez‐Pascual +3 more
wiley +1 more source
Linking Cytoscape and the corynebacterial reference database CoryneRegNet [PDF]
, 2008 Baumbach J, Apeltsin L. Linking Cytoscape and the corynebacterial reference database CoryneRegNet. BMC Genomics. 2008;9(1): 184.Background: Recently, the research community has seen an influx of data relating to transcriptional regulatory interactions of
Baumbach Jan +5 more
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Dynamical approaches to modeling developmental gene regulatory networks
The network of interacting regulatory signals within a cell comprises one of the most complex and powerful computational systems in biology. Gene regulatory networks play a key role in transforming the information encoded in a genome into morphological ...
Geard, Nicholas, Willadsen, Kai
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Unlocking the potential of cell‐permeable nanobodies for intracellular applications
FEBS Letters, EarlyView.This review outlines current strategies for delivery of nanobodies into cells and highlights recent examples of functional applications. By addressing and manipulating intracellular targets, these molecules hold great potential for treating cancer, respiratory diseases and neurological disorders, making this a vibrant area of research in the biomedical
Mariona Gené‐Verdés +2 more
wiley +1 more source
CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks [PDF]
, 2006 Baumbach J, Brinkrolf K, Czaja LF, Rahmann S, Tauch A. CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. BMC Genomics.
Baumbach Jan +14 more
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How structural disorder and polyelectrolyte properties of prothymosin α enable its large interactome
FEBS Letters, EarlyView.In this review, complexes of the fully disordered and highly negatively charged prothymosin α are collected, described, and discussed. Linked to its poly‐electrostatic character, prothymosin α engages a large interactome through multiple different binding modes ranging from fully disordered complexes to short linear motif (SLiM)‐driven interactions ...
Ketty C. Tamburrini +3 more
wiley +1 more source
Dynamics of molecular fluctuations in gene regulatory networks
, 2009 The components that are central to cellular processing are proteins, whose production is regulated by other proteins known as transcription factors. Proteins are products of genes that regulate the expression of one another, thereby forming large gene ...
Pakka, Vijayanarasimha Hindupur
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Reconstructing Dynamic Gene Regulatory Networks Using f-Divergence from Time-Series scRNA-Seq Data
Current Issues in Molecular BiologyInferring time-varying gene regulatory networks from time-series single-cell RNA sequencing (scRNA-seq) data remains a challenging task. The existing methods have notable limitations as most are either designed for reconstructing time-varying networks ...
Yunge Wang +5 more
doaj +1 more source