RNASeqGUI statistics

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Citations per year

Number of citations per year for the bioinformatics software tool RNASeqGUI

Tool usage distribution map

This map represents all the scientific publications referring to RNASeqGUI per scientific context
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Associated diseases

This word cloud represents RNASeqGUI usage per disease context

Popular tool citations

chevron_left Bioinformatics workflows Gene expression visualization Differential expression Normalization chevron_right
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RNASeqGUI specifications


Unique identifier OMICS_04029
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.1.0
Stability Stable
Maintained No


No version available

Publications for RNASeqGUI

RNASeqGUI citations


PIVOT: platform for interactive analysis and visualization of transcriptomics data

BMC Bioinformatics
PMCID: 5756333
PMID: 29304726
DOI: 10.1186/s12859-017-1994-0

[…] mplicated and time-consuming, but also breaks the integrity of the analysis workflow, limiting the sharing of global parameters, filtering criteria and analysis results between modules. Tools such as RNASeqGUI [], START [], ASAP [] and DEApp [] provide an interactive graphical interface for a small number of packages. But, these and other similar packages all adopt a rigid workflow design, have li […]


Glucose impairs tamoxifen responsiveness modulating connective tissue growth factor in breast cancer cells

PMCID: 5752499
PMID: 29312586
DOI: 10.18632/oncotarget.22552

[…] test method), normalization (upper quartile method), quantification of gene expression (SummerizeOverlaps option), and the analysis of differential expression (NoiSeq method) were carried out using “RNASeqGUI” []. A posterior probability threshold of 0.8 was used to select differentially expressed genes (DEGs). Pathway analysis was performed using PANTHER (Protein ANalysis THrough Evolutionary Re […]


Distinct Antigen Delivery Systems Induce Dendritic Cells’ Divergent Transcriptional Response: New Insights from a Comparative and Reproducible Computational Analysis

Int J Mol Sci
PMCID: 5372510
PMID: 28245601
DOI: 10.3390/ijms18030494
call_split See protocol

[…] Ensembl gene annotation (v67) using TopHat version 2.0.14 []. Only uniquely mapped reads were retained for further studies. Details can be found in . Analysis of aligned sequences was performed using RNASeqGUI [,]. RNASeqGUI automatically supports a fully reproducible data analysis. It automatically produces a dynamic report describing all the steps carried out during RNA-Seq data analysis and lin […]


Cripto is essential to capture mouse epiblast stem cell and human embryonic stem cell pluripotency

Nat Commun
PMCID: 5025790
PMID: 27586544
DOI: 10.1038/ncomms12589
call_split See protocol

[…] 500 platform (http://www.igatechnology.com/). Gene expression analysis was obtained by counting reads mapped on gene features, by using htseq-count and the statistical analysis was performed by using RNASeqGUI. In detail, paired-end fastq files were first aligned on the mouse genome version mm9 (downloaded from http://hgdownload.cse.ucsc.edu/goldenPath/mm9/chromosomes) by using TopHat2 (version to […]


Computational Analysis of Single Nucleotide Polymorphisms Associated with Altered Drug Responsiveness in Type 2 Diabetes

Int J Mol Sci
PMCID: 4964384
PMID: 27347941
DOI: 10.3390/ijms17071008

[…] 3.3 workflow (Broad Institute, Cambridge, MA, USA) optimized for RNA-Seq reads, as described in []. Normalization, filtering, data inspection and general data analysis statistics were performed using RNASeqGUI []. […]

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RNASeqGUI institution(s)
Istituto per le Applicazioni del Calcolo, CNR, Napoli, Italy
RNASeqGUI funding source(s)
This work was supported by the Italian Flagship InterOmics Project (PB.P05), BMBS COST Action BM1006, PON01-02460.

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