ArticlePloS one2015
Tn-seq explorer: a tool for analysis of high-throughput sequencing data of transposon mutant libraries.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed.
- Comparative analysis of gene importance inmSystems · 2026Article
- Genome-wide identification of metabolic and regulatory determinants of intracellular growth inbioRxiv : the preprint server for biology · 2026Article
- Tn-seq of Thermus thermophilus Genome Reveals Unexpected Tolerance to Insertions in Bacterial Common Essential Genes.MicrobiologyOpen · 2026Article
- Introducing gold-standard essential gene datasets for Pseudomonas aeruginosa to enhance Tn-Seq analyses.PLoS computational biology · 2026Article
- Prevalence and mechanisms of high-level carbapenem antibiotic tolerance in clinical isolates of Klebsiella pneumoniae.PLoS pathogens · 2026Article
- UnravelingmSystems · 2025Article
- ClpP2 proteasomes and SpxA1 determine Listeria monocytogenes tartrolon B hyper-resistance.PLoS genetics · 2025Article
- Tn-seq profiling reveals that NodS of the beta-rhizobium Paraburkholderia phymatum is detrimental for nodulating soybean.Communications biology · 2024Article
- Essential Genes Discovery in Microorganisms by Transposon-Directed Sequencing (Tn-Seq): Experimental Approaches, Major Goals, and Future Perspectives.International journal of molecular sciences · 2024Review
- Whole genome-scale assessment of gene fitness of Novosphingobium aromaticavorans during spaceflight.BMC genomics · 2023Article
- The SMC-like RecN protein is at the crossroads of several genotoxic stress responses inFrontiers in microbiology · 2023Article
- Elucidation of Essential Genes and Mutant Fitness during Adaptation toward Nitrogen Fixation Conditions in the Endophyte Azoarcus olearius BH72 Revealed by Tn-Seq.Microbiology spectrum · 2022Article
- Pseudomonas putida mediates bacterial killing, biofilm invasion and biocontrol with a type IVB secretion system.Nature microbiology · 2022Article
- Genome-wide characterization of Salmonella Typhimurium genes required for the fitness under iron restriction.BMC genomic data · 2022Article
- Gradients in gene essentiality reshape antibacterial research.FEMS microbiology reviews · 2022Review
- Identification of Key Factors for Anoxic Survival ofInternational journal of molecular sciences · 2022Article
- A Proposed Framework to Identify Dispensable and Essential Functions in Bifidobacteria: Case Study of Bifidobacterium breve UCC2003 as a Prototype of Its Genus.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Using Genome Scale Mutant Libraries to Identify Essential Genes.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Analysis of Gene Essentiality from TnSeq Data Using Transit.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Modeling Site-Specific Nucleotide Biases Affecting Himar1 Transposon Insertion Frequencies in TnSeq Data Sets.mSystems · 2021Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tn-seq is a high throughput technique for analysis of transposon mutant libraries. Tn-seq Explorer was developed as a convenient and easy-to-use package of tools for exploration of the Tn-seq data. In a typical application, the user will have obtained a collection of sequence reads adjacent to transposon insertions in a reference genome. The reads are first aligned to the reference genome using one of the tools available for this task. Tn-seq Explorer reads the alignment and the gene annotation, and provides the user with a set of tools to investigate the data and identify possibly essential or advantageous genes as those that contain significantly low counts of transposon insertions. Emphasis is placed on providing flexibility in selecting parameters and methodology most appropriate for each particular dataset. Tn-seq Explorer is written in Java as a menu-driven, stand-alone application. It was tested on Windows, Mac OS, and Linux operating systems. The source code is distributed under the terms of GNU General Public License. The program and the source code are available for download at http://www.cmbl.uga.edu/downloads/programs/Tn_seq_Explorer/ and https://github.com/sina-cb/Tn-seqExplorer.
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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.