ReviewNucleic acids research2010
On the power and limits of evolutionary conservation--unraveling bacterial gene regulatory networks.
Review in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
11 citing papers in PubMed.
- Computational Network Inference for Bacterial Interactomics.mSystems · 2022Review
- CoryneRegNet 7, the reference database and analysis platform for corynebacterial gene regulatory networks.Scientific data · 2020Article
- The Druggable Pocketome ofFrontiers in genetics · 2018Article
- Improving Gene Regulatory Network Inference by Incorporating Rates of Transcriptional Changes.Scientific reports · 2017Article
- Interactive microbial distribution analysis using BioAtlas.Nucleic acids research · 2017Article
- In silico identification of essential proteins in Corynebacterium pseudotuberculosis based on protein-protein interaction networks.BMC systems biology · 2016Article
- Assessment of transfer methods for comparative genomics of regulatory networks in bacteria.BMC bioinformatics · 2016Article
- CMRegNet-An interspecies reference database for corynebacterial and mycobacterial regulatory networks.BMC genomics · 2015Article
- Core microbial functional activities in ocean environments revealed by global metagenomic profiling analyses.PloS one · 2014Article
- CoryneRegNet 6.0--Updated database content, new analysis methods and novel features focusing on community demands.Nucleic acids research · 2012Article
- Signal correlations in ecological niches can shape the organization and evolution of bacterial gene regulatory networks.Advances in microbial physiology · 2012Review
Corrections and comments
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Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The National Center for Biotechnology Information (NCBI) recently announced '1000 prokaryotic genomes are now completed and available in the Genome database'. The increasing trend will provide us with thousands of sequenced microbial organisms over the next years. However, this is only the first step in understanding how cells survive, reproduce and adapt their behavior while being exposed to changing environmental conditions. One major control mechanism is transcriptional gene regulation. Here, striking is the direct juxtaposition of the handful of bacterial model organisms to the 1000 prokaryotic genomes. Next-generation sequencing technologies will further widen this gap drastically. However, several computational approaches have proven to be helpful. The main idea is to use the known transcriptional regulatory network of reference organisms as template in order to unravel evolutionarily conserved gene regulations in newly sequenced species. This transfer essentially depends on the reliable identification of several types of conserved DNA sequences. We decompose this problem into three computational processes, review the state of the art and illustrate future perspectives.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.