ArticleOmics : a journal of integrative biology2014
COV2HTML: a visualization and analysis tool of bacterial next generation sequencing (NGS) data for postgenomics life scientists.
Article in Omics : a journal of integrative biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Article
- Identification of RNAs bound by Hfq reveals widespread RNA partners and a sporulation regulator in the human pathogenRNA biology · 2021Article
- Root-associated endophytic bacterial community composition and structure of three medicinal licorices and their changes with the growing year.BMC microbiology · 2020Article
- Transcriptomic and Phenotypic Analysis of aFrontiers in microbiology · 2020Article
- Genome-Wide Transcription Start Site Mapping and Promoter Assignments to a Sigma Factor in the Human EnteropathogenFrontiers in microbiology · 2020Article
- Expanding the repertoire of conservative site-specific recombination in Clostridioides difficile.Anaerobe · 2019Article
- Discovery of new type I toxin-antitoxin systems adjacent to CRISPR arrays in Clostridium difficile.Nucleic acids research · 2018Article
- Article
- Article
- Next-Generation "-omics" Approaches Reveal a Massive Alteration of Host RNA Metabolism during Bacteriophage Infection of Pseudomonas aeruginosa.PLoS genetics · 2016Article
- Clostridium difficile: New Insights into the Evolution of the Pathogenicity Locus.Scientific reports · 2015Article
- Article
- Pleiotropic role of the RNA chaperone protein Hfq in the human pathogen Clostridium difficile.Journal of bacteriology · 2014Article
- Expanding the RpoS/σS-network by RNA sequencing and identification of σS-controlled small RNAs in Salmonella.PloS one · 2014Article
- Effect ofmSphereArticle
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5 authors.
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Abstract
COV2HTML is an interactive web interface, which is addressed to biologists, and allows performing both coverage visualization and analysis of NGS alignments performed on prokaryotic organisms (bacteria and phages). It combines two processes: a tool that converts the huge NGS mapping or coverage files into light specific coverage files containing information on genetic elements; and a visualization interface allowing a real-time analysis of data with optional integration of statistical results. To demonstrate the scope of COV2HTML, the program was tested with data from two published studies. The first data were from RNA-seq analysis of Campylobacter jejuni, based on comparison of two conditions with two replicates. We were able to recover 26 out of 27 genes highlighted in the publication using COV2HTML. The second data comprised of stranded TSS and RNA-seq data sets on the Archaea Sulfolobus solfataricus. COV2HTML was able to highlight most of the TSSs from the article and allows biologists to visualize both TSS and RNA-seq on the same screen. The strength of the COV2HTML interface is making possible NGS data analysis without software installation, login, or a long training period. A web version is accessible at https://mmonot.eu/COV2HTML/ . This website is free and open to users without any login requirement.
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