eBioX statistics

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Citations per year

Number of citations per year for the bioinformatics software tool eBioX
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Tool usage distribution map

This map represents all the scientific publications referring to eBioX per scientific context
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Associated diseases

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Protocols

eBioX specifications

Information


Unique identifier OMICS_08913
Name eBioX
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Mac OS
License GNU General Public License version 2.0
Computer skills Medium
Stability No
Maintained No

Versioning


No version available

Publication for eBioX

eBioX citations

 (19)
library_books

Living without DAT: Loss and compensation of the dopamine transporter gene in sauropsids (birds and reptiles)

2015
Sci Rep
PMCID: 4894405
PMID: 26364979
DOI: 10.1038/srep14093

[…] direct searches with appropriate alignment tools such as BLAT and BLAST against the appropriate genomes, and by direct examination of mRNA/EST databases.All sequence analyses were performed using the eBioX (1.5.1) suite of analysis tools. Multiple alignments of NAT protein sequences were estimated using the ClustalW alignment algorithm with standard parameters, and sequence identities were calcula […]

library_books

Sequencing of the human IG light chain loci from a hydatidiform mole BAC library reveals locus specific signatures of genetic diversity

2014
Genes Immun
PMCID: 4304971
PMID: 25338678
DOI: 10.1038/gene.2014.56

[…] from the region suspected to harbor a potential recombination event between proximal and distal regions, were extracted from each haplotype (proximal and distal) and aligned using ClustalW () within ebioX (http://www.ebioinformatics.org/ebiox/). Recombination/gene conversion analysis based on this alignment was conducted using the DSS method within TOPALi v2 (, ). This method is based on comparin […]

library_books

Polymorphism Identification and Improved Genome Annotation of Brassica rapa Through Deep RNA Sequencing

2014
PMCID: 4232532
PMID: 25122667
DOI: 10.1534/g3.114.012526

[…] h an ABI 3730 Capillary Electrophoresis Genetic Analyzer at UC Davis. Each of the sequences from both genotypes along with the Chiifu reference genome sequences were aligned and visually inspected by ebioX software (http://www.ebioinformatics.org/) to verify sequence polymorphisms. In addition to the estimation of true-positive and false-positive SNP rates, we also used these fragments to estimate […]

call_split

Control region sequences indicate that multiple externae represent multiple infections by Sacculina carcini (Cirripedia: Rhizocephala)

2014
Ecol Evol
PMCID: 4222215
PMID: 25473481
DOI: 10.1002/ece3.1177
call_split See protocol

[…] Inc., Norwalk, CT, USA) and the same primers as in the initial PCR. Forward and reverse sequences were aligned and edited in Sequencher v.5.0.1 (Gene Codes) and a contig of all sequences exported to eBioX v.1.5.1 (http://www.ebioinformatics.org) for final alignment using MUSCLE (Edgar ). A haplotype network was subsequently estimated using the TCS program (v.1.21; Clement et al. ) using the defau […]

call_split

Unexpected diversity of the cestode Echinococcus multilocularis in wildlife in Canada

2014
PMCID: 4142260
PMID: 25161905
DOI: 10.1016/j.ijppaw.2014.03.002
call_split See protocol

[…] PCR primers and aligned using the Staden Software Package 2-1.0.0b9. All nad1 sequences underwent protein translation for accuracy verification using the flatworm mitochondrial translation tool from eBIOx prior to further analysis.All sequences from the current study were clipped to 370 base pairs for uniformity, and compared to each other, to previously published sequences, and to the European-t […]

call_split

Complete Nucleotide Sequence and Analysis of Two Conjugative Broad Host Range Plasmids from a Marine Microbial Biofilm

2014
PLoS One
PMCID: 3960245
PMID: 24647540
DOI: 10.1371/journal.pone.0092321
call_split See protocol

[…] Sequencing of pMCBF1 and pMCBF6 was performed earlier in our laboratory using standard techniques . Sequence alignments presented here were created using the eBioX program, the phylogenetic network was created using the SplitsTree program , and the similarity analysis was carried out using the SimPlot program . The content of the genomes of the IncP-1 plas […]


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eBioX institution(s)
The Linnaeus Centre for Bioinformatics, Uppsala University, Biomedical centre, Uppsala, Sweden

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