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Citations per year

Number of citations per year for the bioinformatics software tool ViaComplex
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ViaComplex specifications

Information


Unique identifier OMICS_24371
Name ViaComplex
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Fortran
Computer skills Advanced
Version 1.0
Stability Stable
Source code URL http://lief.if.ufrgs.br/pub/biosoftwares/viacomplex/source.htm
Maintained Yes

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Versioning


No version available

Documentation


Maintainers


  • person_outline Mauro Castro
  • person_outline Rita de Almeida

Publication for ViaComplex

ViaComplex citations

 (4)
library_books

The BET inhibitor JQ1 selectively impairs tumour response to hypoxia and downregulates CA9 and angiogenesis in triple negative breast cancer

2016
Oncogene
PMCID: 5061082
PMID: 27292261
DOI: 10.1038/onc.2016.184

[…] . The Hypoxic Response (HyR) network was designed in STRING (http://string-db.org/) containing the selected pathways ().Gene Set Enrichment Analysis (v2.1) was used to evaluate pathway enrichment (). ViaComplex (v1.0) was used to generate representative landscape images of these results ( and ).Publicly available MCF-7 ChIP-Seq data (GEO dataset GSE55923) was analysed using MACS2. Sequence alignme […]

library_books

Combined Gene Expression and RNAi Screening to Identify Alkylation Damage Survival Pathways from Fly to Human

2016
PLoS One
PMCID: 4839732
PMID: 27100653
DOI: 10.1371/journal.pone.0153970

[…] rotein interaction networks were developed for each pathway (Figs and ; see for NRF2 and UPR pathway gene expressions). Gene expression changes over time within these networks were then examined by ViaComplex analysis. Within the NRF2 pathway a highly connected cluster comprising glutathione S-transferase (GST) orthologs and GSH synthesis enzymes form 8 to 24 h (). Genes such as GstE5, GstE3 (GS […]

library_books

Integrated Transcriptomics Establish Macrophage Polarization Signatures and have Potential Applications for Clinical Health and Disease

2015
Sci Rep
PMCID: 4548187
PMID: 26302899
DOI: 10.1038/srep13351

[…] ene expression responses to inducers, the obtained M(IFNγ + LPS, TNFα) and M(IL-4, IL-13) gene networks were subsequently plotted as representative topological responses using landscape analysis with ViaComplex® software. X and y-axis represent gene signature networks and the z-axis indicates an illustrative expression response to IFNγ + LPS or IL-4 inducers (). […]

library_books

Evolutionary plasticity determination by orthologous groups distribution

2011
Biol Direct
PMCID: 3117832
PMID: 21586164
DOI: 10.1186/1745-6150-6-22

[…] of each protein from the network was determined according to the EPI of the KOG to which the protein takes part. Second, the evolutionary plasticity data was plot onto the network using the software ViaComplex [] to construct a landscape representation. The complete list of H. sapiens genes used to construct the networks is available in Additional file (Supplementary Tables S7) and the complete […]


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ViaComplex institution(s)
Unidade de Bioinformática, Departamento de Bioquimica, Universidade Federal do Rio Grande do Sul, Porto Alegre, Brazil; Instituto de Fisica, Universidade Federal do Rio Grande do Sul, Porto Alegre, Brazil; Nucleo de Bioinformatica, Departamento de Genética, Universidade Federal do Rio Grande do Sul, Porto Alegre, Brazil; Departamento de Fisica, Universidade Federal de Santa Maria, Santa Maria, Brazil
ViaComplex funding source(s)
Supported by the Brazilian Agencies FAPERGS, CAPES and CNPq.

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