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KmerFinderJS specifications

Information


Unique identifier OMICS_10776
Name KmerFinderJS
Alternative name KmerFinder
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Javascript
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Requirements
Redis
Maintained Yes

Subtool


  • Redis

Download


download.png
bitbucket.png

Versioning


No version available

Maintainer


  • person_outline Mette V. Larsen <>

Additional information


Previous versions: https://cge.cbs.dtu.dk//services/KmerFinder/ https://bitbucket.org/genomicepidemiology/kmerdb

Information


Unique identifier OMICS_10776
Name KmerFinderJS
Alternative name KmerFinder
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Subtool


  • Redis

Maintainer


  • person_outline Mette V. Larsen <>

Additional information


Previous versions: https://cge.cbs.dtu.dk//services/KmerFinder/ https://bitbucket.org/genomicepidemiology/kmerdb

Publications for KmerFinderJS

KmerFinderJS citations

 (41)
library_books

The association of CCAT2 rs6983267 SNP with MYC expression and progression of uterine cervical cancer in the Polish population

2018
PMCID: 5897468
PMID: 29525942
DOI: 10.1007/s00404-018-4740-6

[…] encompassing the rs6983267 snp, up-regulates myc through tcf7l2-mediated transcription. this results in the risk of allele g of rs6983267 to produce more lncrnas ccat2 transcript []. recently, redis et al. [] reported that lncrnas ccat2 regulates cancer metabolism in vitro and in vivo in an allele-specific manner by binding the cleavage factor i (cfim) complex with distinct affinities […]

library_books

VIRMISCO – The Virtual Microscope Slide Collection

2018
PMCID: 5904399
PMID: 29706780
DOI: 10.3897/zookeys.741.22284

[…] (v. 38)., system requirements: fast internet connection and a mass storage are required., programming languages: javascript, html, php, shell script, sql., utility software: apache http server, redis, mariadb., external frameworks: behat (v. 2.5.5), behat minkextension (v. 1.3.3), behat minkgouttedriver (v. 1.1.0), fabpot goutte (v. 1.*), php markdown (v. 1.6.0), predis (v. 1.0.1). […]

library_books

LncRNA CCAT2 promoted osteosarcoma cell proliferation and invasion

2018
PMCID: 5908115
PMID: 29502343
DOI: 10.1111/jcmm.13518

[…] an oncogene in osteosarcoma and promoted cell osteosarcoma proliferation, cell cycle and invasion., recent studies have indicated that ccat2 plays important roles in several tumours. for instance, redis et al. showed that ccat2 expression was overexpressed in breast cancer tissues and ccat2 overexpression promoted breast cancer cell migration and decreased chemosensitivity to 5‐fu. qiu et al. […]

library_books

Using Distributed Data over HBase in Big Data Analytics Platform for Clinical Services

2017
PMCID: 5742497
PMID: 29375652
DOI: 10.1155/2017/6120820

[…] hash table) works in any standard programming language. various open-source projects have been implemented to provide key-valued nosql database systems; such projects include memcached, voldemort, redis, and basho riak []. another category of nosql systems is document-oriented database stores. in these systems, a document is like a hash, with a unique id field and values that may […]

library_books

Genome wide identification and differential analysis of translational initiation

2017
PMCID: 5701008
PMID: 29170441
DOI: 10.1038/s41467-017-01981-8

[…] at doi:10.1038/s41467-017-01981-8., publisher's note: springer nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations., we thank dr. roxana s. redis and dr. george a. calin for sharing the hek293 cells. this work was partially funded by nih k99/r00 pathway to independence award (nih r00 ca172700) and sidney kimmel scholar award to j.h., nih […]

library_books

Global phylogenetic analysis of Escherichia coli and plasmids carrying the mcr 1 gene indicates bacterial diversity but plasmid restriction

2017
PMCID: 5681592
PMID: 29127343
DOI: 10.1038/s41598-017-15539-7

[…] online databases were requested from their respective authors. the quality of the raw sequence reads was checked using fastqc (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/), quast and kmerfinder 2.0 (https://cge.cbs.dtu.dk/services/kmerfinder/) (see supplementary methods for more details). reads were trimmed using trimmomatic v0.33. de-novo genome assembly was performed […]


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KmerFinderJS institution(s)
National Food Institute, Technical University of Denmark, Lyngby, Denmark; Systems Biology, Technical University of Denmark, Lyngby, Denmark; Hvidovre Hospital, Hvidovre, Denmark

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