ArticleGenomics, proteomics & bioinformatics2019
shinyChromosome: An R/Shiny Application for Interactive Creation of Non-circular Plots of Whole Genomes.
Article in Genomics, proteomics & bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 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
10 citing papers in PubMed.
- Comprehensive dissection of meiotic DNA double-strand breaks and crossovers in cucumber.Plant physiology · 2023Article
- A comprehensive map of hotspots of de novo telomere addition in Saccharomyces cerevisiae.Genetics · 2023Article
- A comprehensive map of hotspots of de novo telomere addition inbioRxiv : the preprint server for biology · 2023Article
- VCFshiny: an R/Shiny application for interactively analyzing and visualizing genetic variants.Bioinformatics advances · 2023Article
- Exploring domestication pattern in lotus: insights from dispensable genome assembly.Frontiers in plant science · 2023Article
- New Data and New Features of the FunRiceGenes (Functionally Characterized Rice Genes) Database: 2021 Update.Rice (New York, N.Y.) · 2022Article
- Haploidy in somatic cells is induced by mature oocytes in mice.Communications biology · 2022Article
- LIRBase: a comprehensive database of long inverted repeats in eukaryotic genomes.Nucleic acids research · 2022Article
- Detection of loci exhibiting pleiotropic effects on body weight and egg number in female broilers.Scientific reports · 2021Article
- Cancer Cytogenetics: Deep Roots, New Branches in the Age of Omics.Cancer genomics & proteomicsReview
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Non-circular plots of whole genomes are natural representations of genomic data aligned along all chromosomes. Currently, there is no specialized graphical user interface (GUI) designed to produce non-circular whole genome diagrams, and the use of existing tools requires considerable coding effort from users. Moreover, such tools also require improvement, including the addition of new functionalities. To address these issues, we developed a new R/Shiny application, named shinyChromosome, as a GUI for the interactive creation of non-circular whole genome diagrams. shinyChromosome can be easily installed on personal computers for own use as well as on local or public servers for community use. Publication-quality images can be readily generated and annotated from user input using diverse widgets. shinyChromosome is deployed at http://150.109.59.144:3838/shinyChromosome/, http://shinyChromosome.ncpgr.cn, and https://yimingyu.shinyapps.io/shinyChromosome for online use. The source code and manual of shinyChromosome are freely available at https://github.com/venyao/shinyChromosome.
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.