RevTrans statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

RevTrans specifications

Information


Unique identifier OMICS_03741
Name RevTrans
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Anders Gorm Pedersen

Information


Unique identifier OMICS_03741
Name RevTrans
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Anders Gorm Pedersen

Publication for RevTrans

RevTrans citations

 (118)
library_books

Evolutionary Analysis Provides Insight Into the Origin and Adaptation of HCV

2018
Front Microbiol
PMCID: 5938362
PMID: 29765366
DOI: 10.3389/fmicb.2018.00854

[…] s for mammalian OCLN, CD81, CLDN1, and SCARB1 (encoding SRB1) were retrieved from the NCBI database. A list of species is available in the Supplementary Table . DNA alignments were performed with the RevTrans 2.0 utility, MAFFT v6.240 as an aligner) (), which uses the protein sequence alignment as a scaffold for constructing the corresponding DNA multiple alignment. All alignments were screened fo […]

library_books

Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study

2018
Wellcome Open Res
PMCID: 5930550
PMID: 29774245
DOI: 10.21956/wellcomeopenres.15526.r32391

[…] rom the nasopharynx of asymptomatically carrying children in Massachusetts – . We ran IQ-TREE on the whole alignment using a GTR model (-m GTR). We then aligned each core gene at the codon level with RevTrans v1.10 , and then ran IQ-TREE on each nucleotide alignment using the same model. We calculated the KC metric with λ = 0 between all these pairs of trees, and used treespace to perform multi-di […]

library_books

Novel Parvoviruses from Wild and Domestic Animals in Brazil Provide New Insights into Parvovirus Distribution and Diversity

2018
Viruses
PMCID: 5923437
PMID: 29565808
DOI: 10.3390/v10040143

[…] tructural (NS) proteins and viral proteins (VPs), identified in the present study with representative members of the Parvovirinae subfamily []. Multiple sequence alignment (MSA) was carried out using RevTrans 2.0 [] with manual adjustment. The alignments of the core of the NS and VP protein ML trees were inferred using IQ-TREE version 1.4.3 software based on an LG+F+G4 protein substitution model t […]

library_books

The genome structure of Arachis hypogaea (Linnaeus, 1753) and an induced Arachis allotetraploid revealed by molecular cytogenetics

2018
PMCID: 5904367
PMID: 29675140
DOI: 10.3897/CompCytogen.v12i1.20334

[…] lies, and amongst the most and least frequent LTR-retrotransposons in A. duranensis and A. ipaensis genomes. DNA corresponding to the sequence coding for the reverse transcriptase enzyme of RE128-84 (Revtrans-RE) and Pipoka (Revtrans-PIP) were used to obtain the probes for FISH. Since Athena family comprises non-autonomous elements, there is no DNA sequence coding for the reverse transcriptase enz […]

call_split

Origin and dispersal of Hepatitis E virus

2018
PMCID: 5837148
PMID: 29410449
DOI: 10.1038/s41426-017-0009-6
call_split See protocol

[…] gion of highest coverage with a minimum alignment length of 300 bp. This region corresponded to Reg-2-short, with an alignment length of 360 nucleotides.Alignments of all regions were generated using RevTrans 2.0, which uses the protein alignment as a scaffold to build the nucleotide alignment. […]

call_split

Multi locus sequence typing of African swine fever viruses from endemic regions of Kenya and Eastern Uganda (2011–2013) reveals rapid B602L central variable region evolution

2017
PMCID: 5847163
PMID: 29143187
DOI: 10.1007/s11262-017-1521-4
call_split See protocol

[…] nces corresponding to the four polymorphic loci obtained from GenBank. Translation of the nucleotide sequences to amino acid sequences for the thymidine kinase and B602L genes was performed using the RevTrans 2.0 software []. Alignment of the amino acid sequences was then effected using the Sequence Alignment publishing Tool (SeqPublish) available in the HIV sequence database with the aim of ident […]

Citations

Looking to check out a full list of citations?

RevTrans institution(s)
Center for Biological Sequence Analysis, BioCentrum-DTU, Technical University of Denmark, Lyngby, Denmark

RevTrans reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RevTrans