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Citations per year

Number of citations per year for the bioinformatics software tool PriFi
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This map represents all the scientific publications referring to PriFi per scientific context
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PriFi specifications

Information


Unique identifier OMICS_26660
Name PriFi
Interface Web user interface
Restrictions to use None
Input data A multiple sequence alignment.
Input format FASTA,Clustal
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Jakob Fredslund

Publication for PriFi

PriFi citations

 (17)
library_books

Evaluation of Reference Genes to Analyze Gene Expression in Silverside Odontesthes humensis Under Different Environmental Conditions

2018
Front Genet
PMCID: 5861154
PMID: 29593778
DOI: 10.3389/fgene.2018.00075

[…] ve gene that is reported to be affected by glyphosate-based herbicides and salt treatments (Shiogiri et al., ; Armesto et al., ).The gene fragments were amplified by PCR using primers designed in the PriFi online tool (https://services.birc.au.dk/prifi/) after alignments (Supplementary Table ) of known sequences deposited in the GenBank (Table ). The PCR was performed using the mix buffer GoTaq® G […]

library_books

Characterisation of the Thermostable Protease AprX in Strains of Pseudomonas Fluorescens and Impact on the Shelf life of Dairy Products: Preliminary Results

2016
PMCID: 5225826
PMID: 28217561
DOI: 10.4081/ijfs.2016.6175

[…] Primers for aprX gene amplification were designed using PriFi software (http://cgiwww.daimi.au.dk/cgi-chili/PriFi; Fredslund et al., ) using as template the alignment of aprX sequences from complete genomes of P. fluorescens group already available in Genb […]

library_books

Identification of QTLs Associated with Virulence Related Traits and Drug Resistance in Cryptococcus neoformans

2016
PMCID: 5015932
PMID: 27371951
DOI: 10.1534/g3.116.029595

[…] ree codominant Polymerase Chain Reaction-Restriction Length Polymorphism (PCR-RFLP) markers were used to determine genotypes for all progeny. Markers were either taken from , , or , or designed using Prifi () (Supplemental Material, Table S1). […]

library_books

Phylogenetic diversity and functional gene patterns of sulfur oxidizing subseafloor Epsilonproteobacteria in diffuse hydrothermal vent fluids

2013
Front Microbiol
PMCID: 3703533
PMID: 23847608
DOI: 10.3389/fmicb.2013.00185

[…] r sp. SB155-2, Sulfurovum sp. NBC-37, and Sulfurimonas denitrificans DSM 1225 (Table ). Initial primer sequences were created using the soxB nucleotide sequences in Primaclade (Gadberry et al., ) and PriFi (Fredslund et al., ), and the amino acid sequences in iCODEHOP (Boyce et al., ). Sequences were then manually adjusted based on the initial bacterial sequences. CODEHOPs are hybrid primers that […]

library_books

A Divergent P Element and Its Associated MITE, BuT5, Generate Chromosomal Inversions and Are Widespread within the Drosophila repleta Species Group

2013
Genome Biol Evol
PMCID: 3698922
PMID: 23682154
DOI: 10.1093/gbe/evt076

[…] BuT5 and P-element primers BL, BR, P3, and P13 were designed based on sequences obtained by bioinformatic searches (from D. buzzatii and D. mojavensis). PriFi () was used to find the best regions to place the primers on multiple alignments. The rest of the primers were designed based on D. buzzatii P element (BU-73 strain). All primers were designed w […]

library_books

Evidence for Mitotic Recombination within the Basidia of a Hybrid Cross of Cryptococcus neoformans

2013
PLoS One
PMCID: 3653895
PMID: 23690954
DOI: 10.1371/journal.pone.0062790

[…] taining the PCR-RFLP genotypes followed that described in Sun et al. (2007) . 15 of the 32 markers were the same as those used by Sun et al. (2007) while the remaining 17 markers were designed using Prifi based on the whole genome sequences of JEC21 and H99 (). In addition to the 32 PCR-RFLP markers, we also screened the mating types of these progeny using both the MATa and MATα –specific primer […]


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PriFi institution(s)
Bioinformatics Research Center, University of Aarhus, Aarhus, Denmark; Laboratory of Gene Expression, Department of Molecular Biology, University of Aarhus, Aarhus, Denmark
PriFi funding source(s)
Supported by the Danish Agricultural and Veterinary Research Council.

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