ReviewCurrent opinion in microbiology2013
Entering the era of bacterial epigenomics with single molecule real time DNA sequencing.
Review in Current opinion in microbiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
64 citing papers in PubMed, 115 citations in OpenAlex.
- Crosstalk between 6-methyladenine and 4-methylcytosine iniScience · 2024Article
- Changes in DNA methylation contribute to rapid adaptation in bacterial plant pathogen evolution.PLoS biology · 2024Article
- Emerging methylation-based approaches in microbiome engineering.Biotechnology for biofuels and bioproducts · 2024Review
- Comparison ofEpigenomes · 2023Article
- MultiScale-CNN-4mCPred: a multi-scale CNN and adaptive embedding-based method for mouse genome DNA N4-methylcytosine prediction.BMC bioinformatics · 2023Article
- i4mC-GRU: Identifying DNA NComputational and structural biotechnology journal · 2023Article
- Exploring the crop epigenome: a comparison of DNA methylation profiling techniques.Frontiers in plant science · 2023Review
- Comparative analysis of genome code complexity and manufacturability with engineering benchmarks.Scientific reports · 2022Article
- Systematic Analysis and Accurate Identification of DNA N4-Methylcytosine Sites by Deep Learning.Frontiers in microbiology · 2022Article
- Role of DNA modifications in Mycoplasma gallisepticum.PloS one · 2022Article
- i6mA-Vote: Cross-Species Identification of DNA N6-Methyladenine Sites in Plant Genomes Based on Ensemble Learning With Voting.Frontiers in plant science · 2022Article
- Genome-wide detection of cytosine methylations in plant from Nanopore data using deep learning.Nature communications · 2021Article
- Article
- DNA methylation by three Type I restriction modification systems of Escherichia coli does not influence gene regulation of the host bacterium.Nucleic acids research · 2021Article
- Article
- Detection of genetic variation and base modifications at base-pair resolution on both DNA and RNA.Communications biology · 2021Article
- A Type I Restriction Modification System Influences Genomic Evolution Driven by Horizontal Gene Transfer inFrontiers in microbiology · 2021Article
- Waddington's Landscapes in the Bacterial World.Frontiers in microbiology · 2021Review
- Performance and Application of 16S rRNA Gene Cycle Sequencing for Routine Identification of Bacteria in the Clinical Microbiology Laboratory.Clinical microbiology reviews · 2020Review
- Accurate prediction of DNA NBMC genomics · 2020Article
4 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
3 authors at 1 institution in 1 country.
Funding
Abstract
DNA modifications, such as methylation guide numerous critical biological processes, yet epigenetic information has not routinely been collected as part of DNA sequence analyses. Recently, the development of single molecule real time (SMRT) DNA sequencing has enabled detection of modified nucleotides (e.g. 6mA, 4mC, 5mC) in parallel with acquisition of primary sequence data, based on analysis of the kinetics of DNA synthesis reactions. In bacteria, genome-wide mapping of methylated and unmethylated loci is now feasible. This technological advance sets the stage for comprehensive, mechanistic assessment of the effects of bacterial DNA methyltransferases (MTases)-which are ubiquitous, extremely diverse, and largely uncharacterized-on gene expression, chromosome structure, chromosome replication, and other fundamental biological processes. SMRT sequencing also enables detection of damaged DNA and has the potential to uncover novel DNA modifications.
Indexed as
Identifiers
What OpenQuestion holds
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.