RestrictionMapper protocols

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RestrictionMapper specifications

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Unique identifier OMICS_17688
Name RestrictionMapper
Interface Web user interface
Restrictions to use None
Programming languages Perl
Computer skills Basic
Stability Stable
Maintained Yes

RestrictionMapper in pipeline

2015
PMCID: 4815569
PMID: 25940119
DOI: 10.5830/CVJA-2015-019

[…] using the clustalw v1.4 programme and analysed for mismatches to the reference sequence., the effect of sequence variants on restriction enzyme recognition sites was determined using restrictionmapper.org, http://insilico.ehu.es/restriction, and nebcutter, http://tools.neb.com/nebcutter2/. restriction enzyme analysis was then used to confirm genotypes, where possible. digestion […]

RestrictionMapper in publications

 (27)
PMCID: 5594730
PMID: 28877567
DOI: 10.3347/kjp.2017.55.4.367

[…] lithuania). at first, this enzyme was tested against sequences of reference strains (fasta format genes downloaded from genbank) and searched for restriction sites using restriction mapper 3 (www.restrictionmapper.org). theoretically, obtained fragments from digestion with haeiii would be expected to create different patterns as follows: l. major (351, 307, 246, 152, 99, 47, 41, 40, 34, and 2 […]

PMCID: 5634817
PMID: 29021970
DOI: 10.1016/j.bdq.2017.08.001

[…] and enzymatic digestion has been suggested to eliminate this effect. prior to ddpcr, genomic dna was digested with a restriction enzyme. sequence of interest was checked for various enzymes using restrictionmapper (http://www.restrictionmapper.org) and it was found that hindiii did not digest the sequences of interest and therefore all samples were digested with hindiii prior to pcr. […]

PMCID: 5501944
PMID: 28688454
DOI: 10.1186/s12917-017-1137-x

[…] under uv illumination using the ec3 chemi hr 410 imaging system (ultra-violet products ltd., uk)., restriction enzymes (bamhi, nhei and ecori) were selected for the rflp analysis using version 3 of restrictionmapper (http://www.restrictionmapper.org/)., the cleavage reaction was performed in a final volume of 16 μl containing 5 μl of the amplified product, 1 μl of the adequate restriction […]

PMCID: 5477317
PMID: 28522702
DOI: 10.1128/genomeA.00315-17

[…] 96% identity), which infects e. coli b strains with an incomplete core lipopolysaccharide (). the restriction digestion analysis in silico using restriction mapper version 3 tool (http://www.restrictionmapper.org) showed that the alf5 genome sequence contains no recognition sites for many restriction enzymes, including bamhi, xhoi, saci, psti, and even mboi, which recognizes gatc, […]

PMCID: 5450958
PMID: 28506038
DOI: 10.3347/kjp.2017.55.2.159

[…] nos. ku893351 to ku893860) amplified from korean p. vivax isolates [], we surveyed the restriction enzyme sites in each subtype of msp-1 and msp-3α using the restriction mapper program (http://www.restrictionmapper.org/). the restriction enzymes with digestion sites that were conserved within a subtype in a given sequence were selected. the selected restriction enzymes and their predicted […]

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