SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals
出版年份 2016 全文链接
标题
SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals
作者
关键词
-
出版物
PeerJ
Volume 4, Issue -, Pages e2056
出版商
PeerJ
发表日期
2016-05-24
DOI
10.7717/peerj.2056
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- Discovery and profiling of small RNAs responsive to stress conditions in the plant pathogen Pectobacterium atrosepticum
- (2016) Stanford Kwenda et al. BMC GENOMICS
- GenBank
- (2015) Karen Clark et al. NUCLEIC ACIDS RESEARCH
- The MEME Suite
- (2015) Timothy L. Bailey et al. NUCLEIC ACIDS RESEARCH
- Characterization of the Escherichia coli σS core regulon by Chromatin Immunoprecipitation-sequencing (ChIP-seq) analysis
- (2015) Clelia Peano et al. Scientific Reports
- Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655
- (2015) Sang Woo Seo et al. Cell Reports
- Prokka: rapid prokaryotic genome annotation
- (2014) T. Seemann BIOINFORMATICS
- Molecular mechanisms of two-component system RhpRS regulating type III secretion system in Pseudomonas syringae
- (2014) Xin Deng et al. NUCLEIC ACIDS RESEARCH
- nhmmer: DNA homology search with profile HMMs
- (2013) T. J. Wheeler et al. BIOINFORMATICS
- RegTransBase – a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes
- (2013) Michael J Cipriano et al. BMC GENOMICS
- RegPrecise 3.0 – A resource for genome-scale exploration of transcriptional regulation in bacteria
- (2013) Pavel S Novichkov et al. BMC GENOMICS
- CollecTF: a database of experimentally validated transcription factor-binding sites in Bacteria
- (2013) Sefa Kılıç et al. NUCLEIC ACIDS RESEARCH
- Genome Sequence of Pectobacterium carotovorum subsp. carotovorum Strain PCC21, a Pathogen Causing Soft Rot in Chinese Cabbage
- (2012) T.-H. Park et al. JOURNAL OF BACTERIOLOGY
- Genome Sequence of Pectobacterium sp. Strain SCC3193
- (2012) J. P. Koskinen et al. JOURNAL OF BACTERIOLOGY
- Novel regulation targets of the metal-response BasS-BasR two-component system of Escherichia coli
- (2012) H. Ogasawara et al. MICROBIOLOGY-SGM
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- RegPrecise web services interface: programmatic access to the transcriptional regulatory interactions in bacteria reconstructed by comparative genomics
- (2012) P. S. Novichkov et al. NUCLEIC ACIDS RESEARCH
- RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more
- (2012) Heladia Salgado et al. NUCLEIC ACIDS RESEARCH
- Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data
- (2011) T. Carver et al. BIOINFORMATICS
- A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
- (2011) H. Li BIOINFORMATICS
- Genome Sequence of the Plant-Pathogenic Bacterium Dickeya dadantii 3937
- (2011) J. D. Glasner et al. JOURNAL OF BACTERIOLOGY
- SlyA Protein ActivatesfimBGene Expression and Type 1 Fimbriation inEscherichia coliK-12
- (2011) Gareth McVicker et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Genetic characterization of the HrpL regulon of the fire blight pathogen Erwinia amylovora reveals novel virulence factors
- (2011) R. RYAN MCNALLY et al. MOLECULAR PLANT PATHOLOGY
- HMMER web server: interactive sequence similarity searching
- (2011) R. D. Finn et al. NUCLEIC ACIDS RESEARCH
- Accelerated Profile HMM Searches
- (2011) Sean R. Eddy PLoS Computational Biology
- A role for the Rcs phosphorelay in regulating expression of plant cell wall degrading enzymes in Pectobacterium carotovorum subsp. carotovorum
- (2010) L. Andresen et al. MICROBIOLOGY-SGM
- Pseudomonas syringaeTwo-Component Response Regulator RhpR Regulates Promoters Carrying an Inverted Repeat Element
- (2010) Xin Deng et al. MOLECULAR PLANT-MICROBE INTERACTIONS
- RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)
- (2010) S. Gama-Castro et al. NUCLEIC ACIDS RESEARCH
- RegPredict: an integrated system for regulon inference in prokaryotes by comparative genomics approach
- (2010) P. S. Novichkov et al. NUCLEIC ACIDS RESEARCH
- Defining the Plasticity of Transcription Factor Binding Sites by Deconstructing DNA Consensus Sequences: The PhoP-Binding Sites among Gamma/Enterobacteria
- (2010) Oscar Harari et al. PLoS Computational Biology
- Biopython: freely available Python tools for computational molecular biology and bioinformatics
- (2009) P. J. A. Cock et al. BIOINFORMATICS
- SlyA, a MarR Family Transcriptional Regulator, Is Essential for Virulence in Dickeya dadantii 3937
- (2009) M. M. Haque et al. JOURNAL OF BACTERIOLOGY
- Participation of Regulator AscG of the -Glucoside Utilization Operon in Regulation of the Propionate Catabolism Operon
- (2009) Y. Ishida et al. JOURNAL OF BACTERIOLOGY
- RegPrecise: a database of curated genomic inferences of transcriptional regulatory interactions in prokaryotes
- (2009) Pavel S. Novichkov et al. NUCLEIC ACIDS RESEARCH
- The RAST Server: Rapid Annotations using Subsystems Technology
- (2008) Ramy K Aziz et al. BMC GENOMICS
- Characterization of the PvdS-regulated promoter motif in Pseudomonas syringae pv. tomato DC3000 reveals regulon members and insights regarding PvdS function in other pseudomonads
- (2008) Bryan Swingle et al. MOLECULAR MICROBIOLOGY
- PRODORIC (release 2009): a database and tool platform for the analysis of gene regulation in prokaryotes
- (2008) A. Grote et al. NUCLEIC ACIDS RESEARCH
Create your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started