BetAware protocols

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BetAware specifications

Information


Unique identifier OMICS_16374
Name BetAware
Interface Web user interface
Restrictions to use None
Input data The protein sequence.
Input format FASTA
Output data The predicted TMBB, the predicted topology.
Output format FASTA
Programming languages Python
Computer skills Basic
Stability Stable
Source code URL http://biocomp.unibo.it/savojard/betawarecl/betaware.tar.gz
Maintained Yes

Maintainer


  • person_outline Castrense Savojardo <>

Information


Unique identifier OMICS_16374
Name BetAware
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The protein sequence.
Input format FASTA
Output data The predicted TMBB, the predicted topology.
Output format FASTA
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Requirements
Argparse library, numpy, scipy
Source code URL http://biocomp.unibo.it/savojard/betawarecl/betaware.tar.gz
Maintained Yes

Versioning


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Maintainer


  • person_outline Castrense Savojardo <>

Publication for BetAware

BetAware in pipeline

2018
PMCID: 5877670
PMID: 29534491
DOI: 10.3390/ijms19030809

[…] or 18 strands []. the result of the secondary structure prediction algorithm cfssp [] showed that exti had more β-strands than α-helices. the transmembrane detection and topology prediction program betaware [] suggested that exti contained 12 transmembrane segments constituting a β-barrel structure (b). a signalp 4.1 server (available online: http://www.cbs.dtu.dk/services/signalp/) [] […]


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BetAware in publications

 (2)
PMCID: 5877670
PMID: 29534491
DOI: 10.3390/ijms19030809

[…] or 18 strands []. the result of the secondary structure prediction algorithm cfssp [] showed that exti had more β-strands than α-helices. the transmembrane detection and topology prediction program betaware [] suggested that exti contained 12 transmembrane segments constituting a β-barrel structure (b). a signalp 4.1 server (available online: http://www.cbs.dtu.dk/services/signalp/) [] […]

PMCID: 3961360
PMID: 24651569
DOI: 10.1371/journal.ppat.1004013

[…] loops (l1 to l4), exposed at the cell surface (). this prediction was confirmed by analyzing the sequence of the protein using tmpred (http://www.ch.embnet.org/software/tmpred_form) and the betaware software . sequence analysis indicated that transposon insertions occurred in the distal part of the cds, within the 4th and 6th beta sheets, with mutants tn27 and tn907 presenting […]


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BetAware institution(s)
Biocomputing Group, CIRI-Health Science and Technology/Department of Biology, University of Bologna, Bologna, Italy; Department of Computer Science and Engineering, University of Bologna, Bologna, Italy
BetAware funding source(s)
This work was supported by the following grants: PRIN 2009 project 009WXT45Y (MIUR), PON project PON01_02249 and COST BMBS Action TD1101(EU-RTD Programme).

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