MyDbFinder protocols

View MyDbFinder computational protocol

MyDbFinder statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Nucleotide sequence homology search chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

MyDbFinder specifications

Information


Unique identifier OMICS_21966
Name MyDbFinder
Alternative name MyDatabaseFinder
Software type Application/Script
Interface Web user interface
Restrictions to use None
Input data An uncompressed database of DNA sequences.
Input format FASTA
Computer skills Basic
Version 1.1
Stability Stable
Maintained Yes

Documentation


Additional information


https://cge.cbs.dtu.dk/services/MyDbFinder/instructions.php

MyDbFinder in pipeline

2017
PMCID: 5245877
PMID: 28103259
DOI: 10.1371/journal.pone.0169324

[…] of the 44 v. cholerae o1 strains revealed 15 strains determined as being typical el tor similar to the phenotype of el tor strain n16961 (cca+ hse+ pbr vp+). the 15 strains all carried according to mydbfinder identical genes; ctxb, rstr, and tcpa with the exception of three environmental strains (tc22, mk14, and 4t5) and one clinical strain (tc183). two strains (vc o1-8 and vc o1-10) belonged […]


To access a full list of citations, you will need to upgrade to our premium service.

MyDbFinder in publications

 (6)
PMCID: 5674738
PMID: 29142593
DOI: 10.1186/s13099-017-0210-0

[…] for identity. the study isolates were further screened for the presence of prophage sequences within the genome using phast (phage search tool) (http://phast.wishartlab.com) []., the web-based mydbfinder 1.0 (https://cge.cbs.dtu.dk/services/mydbfinder/) was used, in silico to determine the sxt elements (int sxt), specific integrase genes of class 1 integron (inti gene) and specific gene […]

PMCID: 5553058
DOI: 10.2807/1560-7917.ES.2017.22.31.30584

[…] human bloodstream infections collected in the years 2014 to 2016, as well as the 317 human cpos collected from january 2014 until may 2017 were investigated in silico for the presence of mcr-3 using mydbfinder (https://cge.cbs.dtu.dk/services/mydbfinder/). none of the cpos were positive for mcr-3. , an mcr-3-variant was detected in one st131 e. coli isolate (isolate id sntr36b6, short read […]

PMCID: 5504799
PMID: 28693615
DOI: 10.1186/s13104-017-2594-9

[…] clcbio’s genomics workbench (gw) v6.5 (clcbio’s, aarhus, denmark) on default settings and a minimum contig-size of 500 nts. subsequently, various types of genes were identified using the web-tool mydbfinder v1.1 [] with selected verification of open reading frames (orfs) using the blastn implementation in clcbio’s main workbench (mw) v8.5. nucleotide sequences of various genes were obtained […]

PMCID: 5313175
PMID: 28207789
DOI: 10.1371/journal.pone.0171986

[…] a p value of ≤0.05 was considered statistically significant, and a p value of ≤0.001 was considered highly significant., screening for virulence-related genes was performed by using the online tool mydbfinder 1.1, provided by the center for genomic epidemiology (https://cge.cbs.dtu.dk/services/). only genes that have previously been associated with one of the phenotypes investigated later, i.e. […]

PMCID: 5245877
PMID: 28103259
DOI: 10.1371/journal.pone.0169324

[…] strains; o395 (o1 classical), n16961 (o1 el tor), and mo45 (o139) and based on the combination of previously described conventional biotyping methods [] and genotypically by a bioinformatics tool: mydbfinder (https://cge.cbs.dtu.dk/services/mydbfinder/) as previously described []., antimicrobial susceptibility to ampicillin (amp), azithromycin (azm), cefotaxime (ctx), chloramphenicol (chl), […]


To access a full list of publications, you will need to upgrade to our premium service.

MyDbFinder reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review MyDbFinder