ArticlePlant physiology2016
expVIP: a Customizable RNA-seq Data Analysis and Visualization Platform.
Article in Plant physiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 250 papers, 5 of them syntheses that pooled it.
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.
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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.
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Who cites it
250 citing papers in PubMed, 5 syntheses or guidelines pooled it.
- Consensus genomic regions for grain quality traits in wheat revealed by Meta-QTL analysis and in silico transcriptome integration.The plant genome · 2023Pooled it
- Transcriptome meta-analysis of abiotic stresses-responsive genes and identification of candidate transcription factors for broad stress tolerance in wheat.Protoplasma · 2023Pooled it
- Identification of Key Gene Network Modules and Hub Genes Associated with Wheat Response to Biotic Stress Using Combined Microarray Meta-analysis and WGCN Analysis.Molecular biotechnology · 2023Pooled it
- Deciphering key genomic regions controlling flag leaf size in wheat via integration of meta-QTL and in silico transcriptome assessment.BMC genomics · 2023Pooled it
- Identification of quantitative trait loci (QTL) and meta-QTL analysis for kernel size-related traits in wheat (Triticum aestivum L.).BMC plant biology · 2022Pooled it
- Temporal GWAS and QTL mapping of UAV-derived digital canopy height reveals stage-specific genetic effects in bread wheat.Plant phenomics (Washington, D.C.) · 2026Article
- Discovery of a novel non-race-specific adult-plant resistance (APR) locus conferring stripe rust immunity in spelt wheat and its suppression in bread wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Review
- Analysis of the TaNAS gene family in bread wheat identifies additional members and candidates for intragenic biofortification.Journal of experimental botany · 2026Article
- Phylogenetic and Functional Analyses of WheatBiology · 2026Article
- Characterization and Fine Mapping ofPlants (Basel, Switzerland) · 2026Article
- Integrated genome-wide and expression analysis of YABBY genes in Triticum aestivum under PEG-induced osmotic, cold and combined stress.Journal of applied genetics · 2026Article
- Comprehensive Analysis ofBiology · 2026Article
- VERNALIZATION2 alters early tiller development in a facultative spring hexaploid bread wheat.The New phytologist · 2026Article
- Ancient Whole-Genome Duplication and Lineage-Specific Retention Shape the Diversification of bZIP Transcription Factors in Pooideae.Plants (Basel, Switzerland) · 2026Article
- A wheat MYB transcription factor activates defense by repressing TaSIZ1 in response to branched-chain amino acid accumulation.The Plant cell · 2026Article
- Genome-Wide Identification of theBiology · 2026Article
- Virulence gains in the Puccinia striiformis f. sp. tritici PstS10 lineage correlate with expression polymorphism in a candidate Avr effector.Communications biology · 2026Article
- Genomic atlas of phytocyanin genes for improvement of climate resilience in bread wheat.BMC plant biology · 2026Article
- Genome-wide identification of ethylene receptor protein-coding gene families in wheat and their regulated expression during development and under multiple abiotic stresses.BMC plant biology · 2026Article
190 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
The majority of transcriptome sequencing (RNA-seq) expression studies in plants remain underutilized and inaccessible due to the use of disparate transcriptome references and the lack of skills and resources to analyze and visualize these data. We have developed expVIP, an expression visualization and integration platform, which allows easy analysis of RNA-seq data combined with an intuitive and interactive interface. Users can analyze public and user-specified data sets with minimal bioinformatics knowledge using the expVIP virtual machine. This generates a custom Web browser to visualize, sort, and filter the RNA-seq data and provides outputs for differential gene expression analysis. We demonstrate expVIP's suitability for polyploid crops and evaluate its performance across a range of biologically relevant scenarios. To exemplify its use in crop research, we developed a flexible wheat (Triticum aestivum) expression browser (www.wheat-expression.com) that can be expanded with user-generated data in a local virtual machine environment. The open-access expVIP platform will facilitate the analysis of gene expression data from a wide variety of species by enabling the easy integration, visualization, and comparison of RNA-seq data across experiments.
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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.