AIMC Topic: Gene Expression Regulation, Bacterial

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A multi-scale expression and regulation knowledge base for Escherichia coli.

Nucleic acids research Oct 27, 2023
Transcriptomic data is accumulating rapidly; thus, scalable methods for extracting knowledge from this data are critical. Here, we assembled a top-down expression and regulation knowledge base for Escherichia coli. The expression component is a 1035-...
Gene Expression Profiling Transcriptome Escherichia coli Knowledge Bases Escherichia coli Proteins Gene Expression Regulation, Bacterial
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iModulonDB: a knowledgebase of microbial transcriptional regulation derived from machine learning.

Nucleic acids research Jan 8, 2021
Independent component analysis (ICA) of bacterial transcriptomes has emerged as a powerful tool for obtaining co-regulated, independently-modulated gene sets (iModulons), inferring their activities across a range of conditions, and enabling their ass...
Machine Learning Software Gene Expression Profiling Transcriptome Gene Regulatory Networks Transcription Factors Escherichia coli Staphylococcus aureus Bacillus subtilis Databases, Genetic Bacterial Proteins Internet Knowledge Bases Gene Expression Regulation, Bacterial Transcription, Genetic
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Semi-supervised prediction of gene regulatory networks using machine learning algorithms.

Journal of biosciences Oct 1, 2015
Use of computational methods to predict gene regulatory networks (GRNs) from gene expression data is a challenging task. Many studies have been conducted using unsupervised methods to fulfill the task; however, such methods usually yield low predicti...
Gene Regulatory Networks Computational Biology Transcription Factors Support Vector Machine Escherichia coli Datasets as Topic Escherichia coli Proteins Saccharomyces cerevisiae Gene Expression Regulation, Bacterial Gene Expression Regulation, Fungal Saccharomyces cerevisiae Proteins
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