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Associated diseases

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dsCheck specifications

Information


Unique identifier OMICS_13500
Name dsCheck
Interface Web user interface
Restrictions to use None
Input data A RNA sequence or a nucleotide sequence
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Oryza sativa
  • Rodents
    • Rattus norvegicus

Maintainer


  • person_outline Shinichi Morishita <>

Publication for dsCheck

dsCheck in publications

 (18)
PMCID: 5787825
PMID: 28703405
DOI: 10.1111/pbi.12792

[…] were derived from cdna of p. coffeae for pas‐4 and h. multicinctus for act‐4 (figure ). a search for potential off‐target effects of the two dsrna sequences was completed using a database (http://dscheck.rnai.jp/; naito et al., ). it identified 19mers matching five c. elegans genes, eight drosophila genes, five rat genes and one rice gene. all c. elegans and rat matches were eliminated […]

PMCID: 5697603
PMID: 29200471
DOI: 10.1111/eea.12575

[…] medical school, ) are examples of software that automatically design dsrnas for use with rnai and search for otes in a selection of well‐referenced genomes. if dsrnas are designed manually then dscheck (naito et al., ) can be used to predict potential otes. however, it is difficult to fully anticipate off‐target matching for sequences that have not yet been described., the nematode […]

PMCID: 5444863
PMID: 28493870
DOI: 10.1371/journal.pgen.1006788

[…] knockdown lines used in the present study carry different constructs and target different regions of ecr or usp transcripts, respectively. in addition, two independent prediction programs namely, dscheck [] or online ote (off-target effect) prediction tool of drsc (www.flyrnai.org) did not yield any potential off-targets for the concerned dsrna generating sequences. for assays involving […]

PMCID: 5240334
PMID: 28094344
DOI: 10.1038/srep40372

[…] (target sequences separated by at least 200 bp) of err transcript. in addition, prediction of off-targets for the concerned dsrna generating sequences through two independent prediction programs: dscheck or online ote (off-target effect) prediction tool of drsc (www.flyrnai.org) did not yield any potential off-targets. to analyze sperm counts and protamine incorporation into sperm chromatin, […]

PMCID: 5112534
PMID: 27853240
DOI: 10.1038/srep37255

[…] because the induction of ap rani driven by nsyb-gal4, pdf-gal4, and c929 decreased the sleep amount whether it was daytime or nighttime. using a highly sensitive off-target search software (dscheck), we confirmed that there is no significant off-target gene candidate toward ap rnai sequences. thus, it is unlikely that the sleep reduction during the night simply results from off-target […]


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dsCheck institution(s)
Department of Biophysics and Biochemistry, Graduate School of Science, University of Tokyo, Tokyo, Japan; Undergraduate Program for Bioinformatics and Systems Biology, School of Science, University of Tokyo, Tokyo, Japan; Department of Computational Biology, Graduate School of Frontier Sciences, University of Tokyo, Kashiwa, Japan
dsCheck funding source(s)
This work was supported in part by the Special Coordination Fund for Promoting Science and Technology, the Leading Project for Biosimulation and Grants-in-Aid for Scientific Research from the Ministry of Education, Culture, Sports, Science and Technology of Japan.

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