The computational capabilities of many-to-many protein interaction networks

HE Klumpe, J Garcia-Ojalvo, MB Elowitz, YE Antebi - Cell Systems, 2023 - cell.com
Many biological circuits comprise sets of protein variants that interact with one another in a
many-to-many, or promiscuous, fashion. These architectures can provide powerful …

Promoter Architecture and Promoter Engineering in Saccharomyces cerevisiae

H Tang, Y Wu, J Deng, N Chen, Z Zheng, Y Wei, X Luo… - Metabolites, 2020 - mdpi.com
Promoters play an essential role in the regulation of gene expression for fine-tuning genetic
circuits and metabolic pathways in Saccharomyces cerevisiae (S. cerevisiae). However …

[HTML][HTML] Precise, automated control of conditions for high-throughput growth of yeast and bacteria with eVOLVER

BG Wong, CP Mancuso, S Kiriakov, CJ Bashor… - Nature …, 2018 - nature.com
Precise control over microbial cell growth conditions could enable detection of minute
phenotypic changes, which would improve our understanding of how genotypes are shaped …

Systematic humanization of yeast genes reveals conserved functions and genetic modularity

AH Kachroo, JM Laurent, CM Yellman, AG Meyer… - Science, 2015 - science.org
To determine whether genes retain ancestral functions over a billion years of evolution and
to identify principles of deep evolutionary divergence, we replaced 414 essential yeast …

Growth strategy of microbes on mixed carbon sources

X Wang, K Xia, X Yang, C Tang - Nature communications, 2019 - nature.com
A classic problem in microbiology is that bacteria display two types of growth behavior when
cultured on a mixture of two carbon sources: the two sources are sequentially consumed …

[HTML][HTML] Combinatorial signal perception in the BMP pathway

YE Antebi, JM Linton, H Klumpe, B Bintu, M Gong, C Su… - Cell, 2017 - cell.com
The bone morphogenetic protein (BMP) signaling pathway comprises multiple ligands and
receptors that interact promiscuously with one another and typically appear in combinations …

[HTML][HTML] Multi-input chemical control of protein dimerization for programming graded cellular responses

GW Foight, Z Wang, CT Wei, P Jr Greisen… - Nature …, 2019 - nature.com
Chemical and optogenetic methods for post-translationally controlling protein function have
enabled modulation and engineering of cellular functions. However, most of these methods …

A Toolkit for Precise, Multigene Control in Saccharomyces cerevisiae

A Sanford, S Kiriakov, AS Khalil - ACS Synthetic Biology, 2022 - ACS Publications
Systems that allow researchers to precisely control the expression of genes are fundamental
to biological research, biotechnology, and synthetic biology. However, few inducible gene …

Gene regulation and cellular metabolism: an essential partnership

RW Carthew - Trends in Genetics, 2021 - cell.com
It is recognized that cell metabolism is tightly connected to other cellular processes such as
regulation of gene expression. Metabolic pathways not only provide the precursor molecules …

Alternative Substrate Metabolism in Yarrowia lipolytica

M Spagnuolo, M Shabbir Hussain, L Gambill… - Frontiers in …, 2018 - frontiersin.org
Recent advances in genetic engineering capabilities have enabled the development of
oleochemical producing strains of Yarrowia lipolytica. Much of the metabolic engineering …