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BioLign specifications

Information


Unique identifier OMICS_33330
Name BioLign
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Computer skills Medium
Version 4.0.6.2
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Tom Hall

BioLign citations

 (23)
library_books

The Role of Polyphenoloxidase, Peroxidase, and β Glucosidase in Phenolics Accumulation in Olea europaea L. Fruits under Different Water Regimes

2017
Front Plant Sci
PMCID: 5422556
PMID: 28536589
DOI: 10.3389/fpls.2017.00717

[…] Sequences of transcripts coding for PPO, PRX, and β-GLU genes were identified by a tBLASTn approach, implemented in BioLign 4.0, using amino acid sequences of enzymes already characterized in other plant species, including Arabidopsis thaliana, Malus domestica Borkh., Vitis vinifera L., and Populus trichocarpa. A s […]

call_split

Escape to Ferality: The Endoferal Origin of Weedy Rice from Crop Rice through De Domestication

2016
PLoS One
PMCID: 5035073
PMID: 27661982
DOI: 10.1371/journal.pone.0162676
call_split See protocol

[…] uences were assembled into contiguously aligned sequence ‘contigs’ and assigned quality scores using Phred and Phrap. Contigs were aligned and inspected visually for quality and heterozygous sites in BioLign version 4.0.6.2 (Tom Hall, http://en.bio-soft.net/dna/BioLign.html). Heterozygous base calls were randomly assigned to two pseudo-haplotypes, which were then phased using PHASE version 2.1 [–] […]

call_split

Long term balancing selection at the Phosphorus Starvation Tolerance 1 (PSTOL1) locus in wild, domesticated and weedy rice (Oryza)

2016
BMC Plant Biol
PMCID: 4840956
PMID: 27101874
DOI: 10.1186/s12870-016-0783-7
call_split See protocol

[…] p kits. All amplicons were direct Sanger sequenced in both directions following previously described protocols [].PSTOL1 sequences were contiged, aligned and checked for quality using Phred/Phrap and BioLign version 4.0.6.2 (Tom Hall, http://en.bio-soft.net/dna/BioLign.html). Only high quality base calls (quality score of 30 or better) were retained. Alignments were trimmed to the start and stop c […]

library_books

Transcript Analysis and Regulative Events during Flower Development in Olive (Olea europaea L.)

2016
PLoS One
PMCID: 4831748
PMID: 27077738
DOI: 10.1371/journal.pone.0152943

[…] lesterases, oleosins, β-1,3-glucanases, incompatibility determinants, etc.) were used as query to search putative olive orthologues in the local olive libraries using a tBLASTn-based approach and the BioLign software v4.0 (http://biolign.software.informer.com/4.0/). The sequences that met the cut-off value of 1-e-10 were further analysed using the BLASTx algorithm against the non-redundant databas […]

call_split

The Biochemical Properties of the Arabidopsis Ecto Nucleoside Triphosphate Diphosphohydrolase AtAPY1 Contradict a Direct Role in Purinergic Signaling

2015
PLoS One
PMCID: 4379058
PMID: 25822168
DOI: 10.1371/journal.pone.0115832
call_split See protocol

[…] 5.0 (GraphPad) or SPSS 19 (IBM). TM and N-glycosylation site predictions were annotated according to the Knowledgebase [] of the Universal Protein Resource []. Sequence alignments were done with the BioLign program version 4.0.6.2. The putative CaM binding sites were analyzed with an online analysis tool [] described in []. Disulfide bond partner predictions were made with the help of the DiANNA […]

library_books

Genome wide association mapping of iron homeostasis in the maize association population

2015
BMC Genet
PMCID: 4342226
PMID: 25634232
DOI: 10.1186/s12863-014-0153-0

[…] igDye-terminator v3.1 chemistry. Premixed reagents were from Applied Biosystems. The gene sequences were aligned with the software ClustalW2 (http://download.famouswhy.com/clustalw2/) and edited with BioLign (http://en.bio-soft.net/dna/BioLign.html) manually. The SNPs were filtered as described above and the remaining 562 SNPs were added to the above mentioned set of genome-wide distributed SNPs. […]

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