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Protocols

Deqor specifications

Information


Unique identifier OMICS_04733
Name Deqor
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for Deqor

Deqor citations

 (22)
library_books

APPL endosomes are not obligatory endocytic intermediates but act as stable cargo sorting compartments

2015
PMCID: 4602042
PMID: 26459602
DOI: 10.1083/jcb.201311117

[…] d using endoribonuclease-prepared siRNA (esiRNA), produced and purified as described elsewhere (). In brief, optimal esiRNA 400–600 bp target regions were selected within a gene of interest using the DEQOR web server (). The selected region was first amplified from HeLa cDNA with specific primers that contained a T7 promoter sequence (underlined): APPL1 forward, 5′-TCACTATAGGGAGAGCCCTCTCTCTAGATTCT […]

library_books

The iBeetle large scale RNAi screen reveals gene functions for insect development and physiology

2015
Nat Commun
PMCID: 4525174
PMID: 26215380
DOI: 10.1038/ncomms8822

[…] xplain the higher portion of conserved genes in the set of screened genes (82% in the iBeetle screen versus 59% in the official gene set; see ).The target transcript sequences were analysed using the DEQOR algorithm to identify stretches with highest amount of sequences predicted to be efficiently recognized by the RNAi machinery and the lowest amount of potential off-target sites. Fragments withi […]

library_books

Genome wide association analysis identified splicing single nucleotide polymorphism in CFLAR predictive of triptolide chemo sensitivity

2015
BMC Genomics
PMCID: 4485866
PMID: 26121980
DOI: 10.1186/s12864-015-1614-1

[…] ed pools of esiRNA are verified by DNA sequensing and gel electrophoresis to ensure identity and high specificity (Sigma Aldrich). To ensure high specificity and efficacy of the esiRNA, the algorithm DEQOR is utilized (Design and Quality Control of RNAi, available to the public via http://deqor.mpi-cbg.de/deqor_new/input.html). CFLAR specific 424 base pair sequence used in this study to create esi […]

call_split

Non Invasive Delivery of dsRNA into De Waxed Tick Eggs by Electroporation

2015
PLoS One
PMCID: 4474930
PMID: 26091260
DOI: 10.1371/journal.pone.0130008
call_split See protocol

[…] tacgactcactatagggTTATGCGACGGCTAGAACACT- 3’ and GSK3β-T7R: 5′-taatacgactcactatagggGCTCTTGCTCTGTGAAGTTGAA- 3’. The dsRNA specificity was estimated from similar genes in other species in the dsCheck and DEQOR softwares [–]. […]

call_split

Silenced suppressor of cytokine signaling 1 (SOCS1) enhances the maturation and antifungal immunity of dendritic cells in response to Candida albicans in vitro

2014
Immunol Res
PMCID: 4336647
PMID: 25381480
DOI: 10.1007/s12026-014-8562-8
call_split See protocol

[…] The siRNAs targeting the murine SOCS1 gene were designed using online siRNA programs: siRNA Selection Program (http://sirna.wi.mit.edu/home.php), siDirect version 2.0 (http://sidirect2.rnai.jp) and Deqor v3 (http://deqor.mpi-cbg.de/deqor_new/input.html). The siRNAs molecules used for suppression of murine SOCS1 gene and the negative control siRNA (which does not target any sequence present in th […]

call_split

The Modulation of the Symbiont/Host Interaction between Wolbachia pipientis and Aedes fluviatilis Embryos by Glycogen Metabolism

2014
PLoS One
PMCID: 4057193
PMID: 24926801
DOI: 10.1371/journal.pone.0098966
call_split See protocol

[…] To ensure dsRNA specificity and to exclude potential non-specific targets, we used the E-RNAi , dsCheck and DEQOR programs to determine the dsRNA sequence. However, because the A. fluviatilis gene sequences are not available, we performed the analyses based on equivalent regions of the GSK-3 orthologous ge […]


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Deqor institution(s)
Scionics Computer Innovation, GmbH, Dresden, Germany

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