ArticlePloS one2017
PanWeb: A web interface for pan-genomic analysis.
Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
What it found
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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.
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
15 citing papers in PubMed, 27 citations in OpenAlex.
- Pan-genomics: Insight into the Functional Genome, Applications, Advancements, and Challenges.Current genomics · 2025Review
- Step-by-Step Metagenomics for Food Microbiome Analysis: A Detailed Review.Foods (Basel, Switzerland) · 2024Review
- Draft genomes, phylogenomic reconstruction and comparative genome analysis of threeAccess microbiology · 2023Article
- PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes.Bioinformatics (Oxford, England) · 2022Article
- Review
- Reference-agnostic representation and visualization of pan-genomes.BMC bioinformatics · 2021Article
- Article
- Genomic analysis of Chromobacterium haemolyticum: insights into the species resistome, virulence determinants and genome plasticity.Molecular genetics and genomics : MGG · 2020Article
- First Steps in the Analysis of Prokaryotic Pan-Genomes.Bioinformatics and biology insights · 2020Review
- Machine Learning Approaches for Epidemiological Investigations of Food-Borne Disease Outbreaks.Frontiers in microbiology · 2019Review
- PanACEA: a bioinformatics tool for the exploration and visualization of bacterial pan-chromosomes.BMC bioinformatics · 2018Article
- Pan4Draft: A Computational Tool to Improve the Accuracy of Pan-Genomic Analysis Using Draft Genomes.Scientific reports · 2018Article
- PGAP-X: extension on pan-genome analysis pipeline.BMC genomics · 2018Article
- PGAweb: A Web Server for Bacterial Pan-Genome Analysis.Frontiers in microbiology · 2018Article
- ImproveAssembly - Tool for identifying new gene products and improving genome assembly.PloS one · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
With increased production of genomic data since the advent of next-generation sequencing (NGS), there has been a need to develop new bioinformatics tools and areas, such as comparative genomics. In comparative genomics, the genetic material of an organism is directly compared to that of another organism to better understand biological species. Moreover, the exponentially growing number of deposited prokaryote genomes has enabled the investigation of several genomic characteristics that are intrinsic to certain species. Thus, a new approach to comparative genomics, termed pan-genomics, was developed. In pan-genomics, various organisms of the same species or genus are compared. Currently, there are many tools that can perform pan-genomic analyses, such as PGAP (Pan-Genome Analysis Pipeline), Panseq (Pan-Genome Sequence Analysis Program) and PGAT (Prokaryotic Genome Analysis Tool). Among these software tools, PGAP was developed in the Perl scripting language and its reliance on UNIX platform terminals and its requirement for an extensive parameterized command line can become a problem for users without previous computational knowledge. Thus, the aim of this study was to develop a web application, known as PanWeb, that serves as a graphical interface for PGAP. In addition, using the output files of the PGAP pipeline, the application generates graphics using custom-developed scripts in the R programming language. PanWeb is freely available at http://www.computationalbiology.ufpa.br/panweb.
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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.