[HTML][HTML] A review of advances in integrating gene regulatory networks and metabolic networks for designing strain optimization

R Ananda, KM Daud, S Zainudin - … of King Saud University-Computer and …, 2024‏ - Elsevier
Strain optimization aims to overproduce valuable metabolites by leveraging an
understanding of biological systems, including metabolic networks and gene regulatory …

Improving gene regulatory network inference and assessment: The importance of using network structure

JM Escorcia-Rodríguez, E Gaytan-Nuñez… - Frontiers in …, 2023‏ - frontiersin.org
Gene regulatory networks are graph models representing cellular transcription events.
Networks are far from complete due to time and resource consumption for experimental …

Studying temporal dynamics of single cells: expression, lineage and regulatory networks

X Pan, X Zhang - Biophysical Reviews, 2024‏ - Springer
Learning how multicellular organs are developed from single cells to different cell types is a
fundamental problem in biology. With the high-throughput scRNA-seq technology …

[HTML][HTML] Independent component analysis of Corynebacterium glutamicum transcriptomes reveals its transcriptional regulatory network

J Zhao, X Sun, Z Mao, Y Zheng, Z Geng, Y Zhang… - Microbiological …, 2023‏ - Elsevier
Gene expression in bacteria is regulated by multiple transcription factors. Clarifying the
regulation mechanism of gene expression is necessary to understand bacterial …

A manually curated compendium of expression profiles for the microbial cell factory Corynebacterium glutamicum

A Kranz, T Polen, C Kotulla, A Arndt, G Bosco… - Scientific Data, 2022‏ - nature.com
Corynebacterium glutamicum is the major host for the industrial production of amino acids
and has become one of the best studied model organisms in microbial biotechnology …

System principles governing the organization, architecture, dynamics, and evolution of gene regulatory networks

JA Freyre-González, JM Escorcia-Rodríguez… - … in Bioengineering and …, 2022‏ - frontiersin.org
Synthetic biology aims to apply engineering principles for the rational, systematical design
and construction of biological systems displaying functions that do not exist in nature or even …

An integrated database of small RNAs and their interplay with transcriptional gene regulatory networks in Corynebacteria

MTD Parise, D Parise, FF Aburjaile… - Frontiers in …, 2021‏ - frontiersin.org
Small RNAs (sRNAs) are one of the key players in the post-transcriptional regulation of
bacterial gene expression. These molecules, together with transcription factors, form …

Theoretical and empirical study of the evolution of gene regulatory networks

A Petit - 2024‏ - theses.hal.science
The phenotypes of organisms are determined by gene expression. The timing and the
location of gene expression is regulated by a web of interactions that either activate or inhibit …

Exploring in silico transcriptional and post-transcriptional gene regulatory networks in the Corynebacterium genus

MTD Parise - 2021‏ - repositorio.ufmg.br
Transcriptional and post-transcriptional regulation of gene expression are considered key
regulatory steps in bacteria. Regulatory molecules such as transcription factors (TF), sigma …