Toward a foundation model of causal cell and tissue biology with a Perturbation Cell and Tissue Atlas
JE Rood, A Hupalowska, A Regev - Cell, 2024 - cell.com
Comprehensively charting the biologically causal circuits that govern the phenotypic space
of human cells has often been viewed as an insurmountable challenge. However, in the last …
of human cells has often been viewed as an insurmountable challenge. However, in the last …
A brief history of synthetic biology
The ability to rationally engineer microorganisms has been a long-envisioned goal dating
back more than a half-century. With the genomics revolution and rise of systems biology in …
back more than a half-century. With the genomics revolution and rise of systems biology in …
RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond
Abstract RegulonDB (http://regulondb. ccg. unam. mx) is one of the most useful and
important resources on bacterial gene regulation, as it integrates the scattered scientific …
important resources on bacterial gene regulation, as it integrates the scattered scientific …
Adaptive laboratory evolution–principles and applications for biotechnology
M Dragosits, D Mattanovich - Microbial cell factories, 2013 - Springer
Adaptive laboratory evolution is a frequent method in biological studies to gain insights into
the basic mechanisms of molecular evolution and adaptive changes that accumulate in …
the basic mechanisms of molecular evolution and adaptive changes that accumulate in …
Evolution of two-component signal transduction systems
To exist in a wide range of environmental niches, bacteria must sense and respond to a
variety of external signals. A primary means by which this occurs is through two-component …
variety of external signals. A primary means by which this occurs is through two-component …
A census of human transcription factors: function, expression and evolution
Transcription factors are key cellular components that control gene expression: their
activities determine how cells function and respond to the environment. Currently, there is …
activities determine how cells function and respond to the environment. Currently, there is …
A synchronized quorum of genetic clocks
The engineering of genetic circuits with predictive functionality in living cells represents a
defining focus of the expanding field of synthetic biology. This focus was elegantly set in …
defining focus of the expanding field of synthetic biology. This focus was elegantly set in …
Genome‐scale engineering for systems and synthetic biology
Genome‐modification technologies enable the rational engineering and perturbation of
biological systems. Historically, these methods have been limited to gene insertions or …
biological systems. Historically, these methods have been limited to gene insertions or …
Advantages and limitations of current network inference methods
R De Smet, K Marchal - Nature Reviews Microbiology, 2010 - nature.com
Network inference, which is the reconstruction of biological networks from high-throughput
data, can provide valuable information about the regulation of gene expression in cells …
data, can provide valuable information about the regulation of gene expression in cells …
Origins of regulated cell-to-cell variability
Single-cell measurements and lineage-tracing experiments are revealing that phenotypic
cell-to-cell variability is often the result of deterministic processes, despite the existence of …
cell-to-cell variability is often the result of deterministic processes, despite the existence of …