ArticleNature biotechnology2007
High-throughput identification of transcription start sites, conserved promoter motifs and predicted regulons.
Article in Nature biotechnology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 95 papers.
What it found
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Who cites it
95 citing papers in PubMed.
- The two-component system ChvGI maintains cell envelope homeostasis in Caulobacter crescentus.PLoS genetics · 2022Article
- A cryptic transcription factor regulates Caulobacter adhesin development.PLoS genetics · 2022Article
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- Environmental Conditions Modulate the Transcriptomic Response of BothMicroorganisms · 2021Article
- The DUF1013 protein TrcR tracks with RNA polymerase to control the bacterial cell cycle and protect against antibiotics.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Review
- The Two Chemotaxis Clusters in Caulobacter crescentus Play Different Roles in Chemotaxis and Biofilm Regulation.Journal of bacteriology · 2019Article
- Chemical synthesis rewriting of a bacterial genome to achieve design flexibility and biological functionality.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Periplasmic protein EipA determines envelope stress resistance and virulence in Brucella abortus.Molecular microbiology · 2019Article
- Gene network analysis identifies a central post-transcriptional regulator of cellular stress survival.eLife · 2018Article
- Transcriptional profiling of Rickettsia prowazekii coding and non-coding transcripts during in vitro host-pathogen and vector-pathogen interactions.Ticks and tick-borne diseases · 2017Article
- Association of the Cold Shock DEAD-Box RNA Helicase RhlE to the RNA Degradosome in Caulobacter crescentus.Journal of bacteriology · 2017Article
- A New Essential Cell Division Protein in Caulobacter crescentus.Journal of bacteriology · 2017Article
- Replication fork passage drives asymmetric dynamics of a critical nucleoid-associated protein in Caulobacter.The EMBO journal · 2017Article
- Genome Analysis of Conserved Dehydrin Motifs in Vascular Plants.Frontiers in plant science · 2017Article
- Article
- RAG1 targeting in the genome is dominated by chromatin interactions mediated by the non-core regions of RAG1 and RAG2.Nucleic acids research · 2016Article
- Dynamic translation regulation in Caulobacter cell cycle control.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- In-phase oscillation of global regulons is orchestrated by a pole-specific organizer.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- CauloBrowser: A systems biology resource for Caulobacter crescentus.Nucleic acids research · 2016Article
35 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors.
Funding
Abstract
Using 62 probe-level datasets obtained with a custom-designed Caulobacter crescentus microarray chip, we identify transcriptional start sites of 769 genes, 53 of which are transcribed from multiple start sites. Transcriptional start sites are identified by analyzing probe signal cross-correlation matrices created from probe pairs tiled every 5 bp upstream of the genes. Signals from probes binding the same message are correlated. The contribution of each promoter for genes transcribed from multiple promoters is identified. Knowing the transcription start site enables targeted searching for regulatory-protein binding motifs in the promoter regions of genes with similar expression patterns. We identified 27 motifs, 17 of which share no similarity to the characterized motifs of other C. crescentus transcriptional regulators. Using these motifs, we predict coregulated genes. We verified novel promoter motifs that regulate stress-response genes, including those responding to uranium challenge, a stress-response sigma factor and a stress-response noncoding RNA.
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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.