Feedforward loops: evolutionary conserved network motifs redesigned for synthetic biology applications
T Weldemichael, MD Asemoloye, MA Marchisio - Applied Sciences, 2022 - mdpi.com
Feedforward loops (FFLs) are relatively simple network motifs, made of three interacting
genes, that have been found in a large number in E. coli and S. cerevisiae. More recently …
genes, that have been found in a large number in E. coli and S. cerevisiae. More recently …
Evolution of cell size control is canalized towards adders or sizers by cell cycle structure and selective pressures
Cell size is controlled to be within a specific range to support physiological function. To
control their size, cells use diverse mechanisms ranging from 'sizers', in which differences in …
control their size, cells use diverse mechanisms ranging from 'sizers', in which differences in …
Network motifs and hypermotifs in TGFβ-induced epithelial to mesenchymal transition and metastasis
G Sai Bhavani, A Palanisamy - Frontiers in Systems Biology, 2023 - frontiersin.org
Epithelial to mesenchymal transition (EMT) is a complex, non-linear, dynamic multistep
process that plays an integral role in the development of metastatic cancers. A diverse range …
process that plays an integral role in the development of metastatic cancers. A diverse range …
Model-based investigation of the relationship between regulation level and pulse property of I1-FFL gene circuits
Mathematical models are powerful tools in guiding the construction of synthetic biological
circuits, given their capability of accurately capturing and predicting circuit dynamics. Recent …
circuits, given their capability of accurately capturing and predicting circuit dynamics. Recent …
Characterization of Arabidopsis eskimo1 reveals a metabolic link between xylan O‐acetylation and aliphatic glucosinolate metabolism
Glucuronoxylan is present mainly in the dicot of the secondary cell walls, often O‐acetylated,
which stabilizes cell structure by maintaining interaction with cellulose and other cell wall …
which stabilizes cell structure by maintaining interaction with cellulose and other cell wall …
Integrated analysis of smRNAome, transcriptome, and degradome data to decipher microRNAs regulating costunolide biosynthesis in Saussurea lappa
Saussurea lappa (S. lappa) has been known to synthesize medicinally important,
costunolide. Due to its immense therapeutic importance, understanding of regulatory …
costunolide. Due to its immense therapeutic importance, understanding of regulatory …
Differences in evolutionary accessibility determine which equally effective regulatory motif evolves to generate pulses
Transcriptional regulatory networks (TRNs) are enriched for certain “motifs.” Motif usage is
commonly interpreted in adaptationist terms, ie, that the optimal motif evolves. But certain …
commonly interpreted in adaptationist terms, ie, that the optimal motif evolves. But certain …
In enzymatic reactions, the reverse reaction reduces product noise
CC Hsieh, YC Lin, WB Lin, CC Shu - BioSystems, 2024 - Elsevier
Enzymatic reactions are essential for most cellular reactions and ubiquitous in living
organisms. In the present study, we explore the pivotal role of the reverse reaction in …
organisms. In the present study, we explore the pivotal role of the reverse reaction in …
Extrinsic noise of the target gene governs abundance pattern of feed-forward loop motifs
MSA Momin, A Biswas - Physical Review E, 2020 - APS
Feed-forward loop (FFL) is found to be a recurrent structure in bacterial and yeast gene
transcription regulatory networks. In a generic FFL, transcription factor (TF) S regulates …
transcription regulatory networks. In a generic FFL, transcription factor (TF) S regulates …
Association between gene expression plasticity and regulatory network topology
AJR Petit, A Genissel, A Le Rouzic - bioRxiv, 2024 - biorxiv.org
Over the past two decades, numerous studies have been conducted with the aim of
identifying the the structures within regulatory networks responsible for gene expression …
identifying the the structures within regulatory networks responsible for gene expression …