RNASeqGUI statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool RNASeqGUI
info

Tool usage distribution map

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

Associated diseases

This word cloud represents RNASeqGUI usage per disease context
info

Popular tool citations

chevron_left Bioinformatics workflows Gene expression visualization Differential expression Normalization chevron_right
Want to access the full stats & trends on this tool?

Protocols

RNASeqGUI specifications

Information


Unique identifier OMICS_04029
Name RNASeqGUI
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

Versioning


No version available

Publications for RNASeqGUI

RNASeqGUI citations

 (5)
library_books

PIVOT: platform for interactive analysis and visualization of transcriptomics data

2018
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 […]

library_books

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

2017
Oncotarget
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 […]

call_split

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

2017
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 […]

call_split

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

2016
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 […]

library_books

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

2016
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 []. […]


Want to access the full list of citations?
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.

RNASeqGUI reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RNASeqGUI