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Systems biology primer: the basic methods and approaches
I Tavassoly, J Goldfarb, R Iyengar - Essays in biochemistry, 2018 - portlandpress.com
Systems biology is an integrative discipline connecting the molecular components within a
single biological scale and also among different scales (eg cells, tissues and organ systems) …
single biological scale and also among different scales (eg cells, tissues and organ systems) …
Steps in mechanotransduction pathways that control cell morphology
It is increasingly clear that mechanotransduction pathways play important roles in regulating
fundamental cellular functions. Of the basic mechanical functions, the determination of …
fundamental cellular functions. Of the basic mechanical functions, the determination of …
A spatial model of YAP/TAZ signaling reveals how stiffness, dimensionality, and shape contribute to emergent outcomes
YAP/TAZ is a master regulator of mechanotransduction whose functions rely on
translocation from the cytoplasm to the nucleus in response to diverse physical cues …
translocation from the cytoplasm to the nucleus in response to diverse physical cues …
Machine-learning-based approach to decode the influence of nanomaterial properties on their interaction with cells
In an in vitro nanotoxicity system, cell–nanoparticle (NP) interaction leads to the surface
adsorption, uptake, and changes into nuclei/cell phenotype and chemistry, as an indicator of …
adsorption, uptake, and changes into nuclei/cell phenotype and chemistry, as an indicator of …
Cristae formation is a mechanical buckling event controlled by the inner mitochondrial membrane lipidome
Cristae are high‐curvature structures in the inner mitochondrial membrane (IMM) that are
crucial for ATP production. While cristae‐sha** proteins have been defined, analogous …
crucial for ATP production. While cristae‐sha** proteins have been defined, analogous …
Automated brightfield morphometry of 3D organoid populations by OrganoSeg
Spheroid and organoid cultures are powerful in vitro models for biology, but size and shape
diversity within the culture is largely ignored. To streamline morphometric profiling, we …
diversity within the culture is largely ignored. To streamline morphometric profiling, we …
Mechanical constraints imposed by 3D cellular geometry and arrangement modulate growth patterns in the Arabidopsis embryo
Morphogenesis occurs in 3D space over time and is guided by coordinated gene expression
programs. Here we use postembryonic development in Arabidopsis plants to investigate the …
programs. Here we use postembryonic development in Arabidopsis plants to investigate the …
Robust and automated detection of subcellular morphological motifs in 3D microscopy images
Rapid developments in live-cell three-dimensional (3D) microscopy enable imaging of cell
morphology and signaling with unprecedented detail. However, tools to systematically …
morphology and signaling with unprecedented detail. However, tools to systematically …
Insights gained from computational modeling of YAP/TAZ signaling for cellular mechanotransduction
YAP/TAZ signaling pathway is regulated by a multiplicity of feedback loops, crosstalk with
other pathways, and both mechanical and biochemical stimuli. Computational modeling …
other pathways, and both mechanical and biochemical stimuli. Computational modeling …
Cell shape and the microenvironment regulate nuclear translocation of NF‐κB in breast epithelial and tumor cells
Although a great deal is known about the signaling events that promote nuclear
translocation of NF‐κB, how cellular biophysics and the microenvironment might regulate …
translocation of NF‐κB, how cellular biophysics and the microenvironment might regulate …