Harnessing CRISPRi Competition to Develop Multimodule Controllers for Resource-Aware Circuit Design.

Review Open access 2026

From Negative Feedback to Integrated Control: Recombinase-Based Strategies for Mitigating Resource Competition

This chapter describes a negative feedback controller that leverages recombinase-mediated promoter flipping to automatically adjust circuit activity in response to resource usage, thereby stabilizing module performance under fluctuating cellular conditions and introduces the Re-NF-FF controller, which integrates both n...

Rixin Zhang, Rong Zhang, Xiao-Jun Tian · Methods in molecular biology · 0 citations

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Open access Aug 2026

A self-regulating dCas9 system enables robust, portable and multiplexed CRISPR interference

CRISPR interference (CRISPRi) enables programmable and reversible gene repression but often suffers from leakiness in the uninduced state, thereby confounding phenotypes of essential or dosage-sensitive genes. Here, we introduce a novel CRISPRi architecture, in which dCas9 restricts its own expression through a feedbac...

A. Kaczmarczyk, U. Jenal · bioRxiv · 0 citations

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Review Open access Jul 2026

From convergence to an iterative Optimization-Circumvention-Collapse framework in CRISPR bioengineering

An iterative optimization-circumvention-collapse framework is developed in which convergence generates the optimization frontier, identifies mechanistic couplings that may be collapsed, and indicates when architectural dependencies should be circumvented.

Federico Filippone-Thaulero · Journal of high school scien... · 0 citations

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Open access Aug 2026

Optimized parameters for CRISPR-Cas9 interference library design.

This work compares the performance of multiple KRAB domain systems, develops an updated CRISPRi-specific on-target scoring scheme, and quantitatively characterize off-target effects associated with seed-sequence patterns.

Smriti Srikanth, Fengyi Zheng, Laura M Drepanos et al. · Cell Genomics · 0 citations

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Open access Jul 2026

Cas-regulation-targeting chimera enables selective and tunable control of CRISPR/Cas12a

Abstract Selective and tunable regulation of clustered regularly interspaced short palindromic repeats (CRISPR)/Cas12a activity enables on-demand control, yet current strategies remain hindered by nonspecific regulation and limited tunability. Inspired by proximity effect, we present a Cas-regulation-targeting chimera...

Yueyuan Li, Ping Han, Ruo Yuan et al. · Nucleic Acids Research · 0 citations

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Review Aug 2026

Advances in combinatorial CRISPRi screening and applications: Decoding higher-order interactions for next-generation microbial cell factories in synthetic biology.

This review details the optimization of carbon flux in microbial cell factories to circumvent production bottlenecks, alongside the elucidation of protective multigenic networks against severe environmental stress, and provides a comprehensive guide for decoding complex traits and driving rational designs of next-gener...

Xiaofei Zhu, Weiwen Zhang, Tao Sun et al. · Microbiology Research · 0 citations

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