DIALIGN-TX statistics

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Citations per year

Number of citations per year for the bioinformatics software tool DIALIGN-TX
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Tool usage distribution map

This map represents all the scientific publications referring to DIALIGN-TX per scientific context
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Associated diseases

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Protocols

DIALIGN-TX specifications

Information


Unique identifier OMICS_24606
Name DIALIGN-TX
Alternative name DIALIGN-T
Interface Web user interface
Restrictions to use None
Input data A file containing protein sequences or a file containing DNA sequences.
Input format Multiple FASTA
Computer skills Basic
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/DIALIGN-TX

Maintainers


  • person_outline Burkhard Morgenstern
  • person_outline Amarendran Subramanian

Information


Unique identifier OMICS_24606
Name DIALIGN-TX
Alternative name DIALIGN-T
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 1.0.2
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/DIALIGN-TX

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Maintainers


  • person_outline Burkhard Morgenstern
  • person_outline Amarendran Subramanian

Publications for DIALIGN-TX

DIALIGN-TX citations

 (48)
library_books

Unifying the global phylogeny and environmental distribution of ammonia oxidising archaea based on amoA genes

2018
Nat Commun
PMCID: 5904100
PMID: 29666365
DOI: 10.1038/s41467-018-03861-1

[…] ly aligned with 14 different methods: L-INS-i, E-INS-i and G-INS-i strategies of MAFFT v7; PSI-Coffee, EXPRESSO; T-Coffee; ProbCons v1.12; Probalign v1.3; Prank; Muscle v3.7; MSAProbs v0.9.7; Kalign; Dialign-TX; and Clustal Omega. The 10 best alignments were selected after evaluation with MUMSA based on multiple overlap (MOS) and average overlap (AOS) scores. Alignments with MOS above the average […]

call_split

Pathogenic potential and growth kinetics of Muko virus in mice and human derived cells

2016
PMCID: 5057483
PMID: 27777508
DOI: 10.1186/s41182-016-0032-7
call_split See protocol

[…] Phylogenetic analyses of the VP region of selected tick-borne Orbivirus proteins and amino acid sequences were aligned using the DIALIGN-TX v1.0.2 and TrimAl v1.2 [–]. The substitution models were determined by ProtTest v3.4.1 while the phylogenetic trees were reconstructed by the maximum likelihood model using PhyML v3.0.1 [, […]

library_books

Determination of optimal parameters of MAFFT program based on BAliBASE3.0 database

2016
Springerplus
PMCID: 4909661
PMID: 27376004
DOI: 10.1186/s40064-016-2526-5

[…] owing conclusion: T-Coffee and MAFFT are more efficiency to MSA (Pais et al. ). Nuin et al. () compared nine commonly used MSA programs: CLUSTAL W, Dialign2.2, T-Coffee, POA, muscle, MAFFT, PROBCONS, DIALIGN-T and KALIGN, and obtained the following conclusions: among the nine programs tested, the iterative approach available in MAFFT (L-INS-i) and PROBCONS were consistently the most accurate, with […]

library_books

Characterization of multiple sequence alignment errors using complete likelihood score and position shift map

2016
BMC Bioinformatics
PMCID: 4799563
PMID: 26992851
DOI: 10.1186/s12859-016-0945-5

[…] o standard for a long time. Then, it was followed by the “next generation” of aligners, such as T-Coffee [], MAFFT [–], Muscle [, ], ProbCons [], Prank [, ], MUMMALS [], ProbAlign [], M-Coffee [] and DIALIGN-TX [], which feature improved computational speed and/or accuracy, and currently they and the upgraded CLUSTALW can be regarded as the state-of-the-art programs to search for an optimum MSA. N […]

call_split

Tofla virus: A newly identified Nairovirus of the Crimean Congo hemorrhagic fever group isolated from ticks in Japan

2016
Sci Rep
PMCID: 4809068
PMID: 26863911
DOI: 10.1038/srep20213
call_split See protocol

[…] alyzed using Phred/Phrap/Consed software. The viral open reading frames and translated amino acid sequences were analyzed using EMBOSS software ver. 6.3.1. The amino acid sequences were aligned using dialign-tx 1.0.2 software and processed using TrimAl 1.2 software. The amino acid sequences based on full-genome sequences were aligned using mafft v7.245. The phylogenetic trees were constructed base […]

library_books

Late acquisition of mitochondria by a host with chimeric prokaryotic ancestry

2016
Nature
PMCID: 4780264
PMID: 26840490
DOI: 10.1038/nature16941

[…] d used a more accurate phylogenetic approach. We used a similar pipeline to that described in. In brief, multiple sequence alignments using three different aligners, MUSCLE v3.8.31, MAFFT v6.861b and DIALIGN-TX 1.0.2, were performed in forward and reverse orientation. The six resulting alignments were combined with M-COFFEE v8.80 into a maximal-consensus alignment, which was trimmed using trimAl v […]


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DIALIGN-TX institution(s)
Wilhelm-Schickard-Institut fur Informatik, University of Tubingen, Tubingen, Germany; Institute of Microbiology and Genetics, University of Gottingen, Gottingen, Germany; Department of Mathematics, Indian Institute of Technology, Kharagpur, India
DIALIGN-TX funding source(s)
Supported by Deutsche Forschungsgemeinschaft (grants MO 1048/1-1 and MO 1048/6-1, in part).

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