E-RNAi statistics

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Citations per year

Number of citations per year for the bioinformatics software tool E-RNAi
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Tool usage distribution map

This map represents all the scientific publications referring to E-RNAi per scientific context
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Associated diseases

This word cloud represents E-RNAi usage per disease context
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Protocols

E-RNAi specifications

Information


Unique identifier OMICS_04732
Name E-RNAi
Interface Web user interface
Restrictions to use None
Input data A gene identifier or a sequence.
Input format FASTA,RAW
Output format HTML,GFF,AFF
Computer skills Basic
Version 3.2
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Saccharomyces cerevisiae
    • Schizosaccharomyces pombe
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus

Maintainers


  • person_outline Michael Boutros
  • person_outline Thomas Horn
  • person_outline E-RNAi Team

Additional information


http://b110-wiki.dkfz.de/confluence/display/ernai/Overview

Publications for E-RNAi

E-RNAi citations

 (103)
library_books

Enhancing viral vaccine production using engineered knockout vero cell lines – A second look

2018
Vaccine
PMCID: 5890396
PMID: 29555218
DOI: 10.1016/j.vaccine.2018.03.010

[…] demonstrated that knockdown of target genes using RNAi technology resulted in increased production of PV and RV respectively. It is possible that phenotypes induced by transcriptional suppression (i.e., RNAi-mediated knockdown) and genetic deletion (i.e., CRISPR/Cas9 knockout) are not the same. In such a situation, one may imagine that RNAi induced gene knock-down may result in a phenotype with i […]

call_split

Thiamethoxam Resistance in Aphis gossypii Glover Relies on Multiple UDP Glucuronosyltransferases

2018
Front Physiol
PMCID: 5893893
PMID: 29670540
DOI: 10.3389/fphys.2018.00322
call_split See protocol

[…] re previously described by Peng et al. (). Based on the UGT sequences (Supplementary Data ) and the possible interference sites predicted with online prediction software (http://www.dkfz.de/signaling/e-rnai3/), we designed specific primers using DNAMAN 6.0 software (http://www.lynnon.com/dnaman.html). The gene fragments were amplified from cDNA and cloned into pGEM-T (Promega, USA). The purified p […]

library_books

Sea urchin histamine receptor 1 regulates programmed cell death in larval Strongylocentrotus purpuratus

2018
Sci Rep
PMCID: 5838261
PMID: 29507306
DOI: 10.1038/s41598-018-22397-4

[…] well after fertilization and gastrulation, and after approximately 4 weeks of development. Clearly, the knockdown of HA signaling classically used to investigate the earliest stages of development (i.e. RNAi or CRISPR/Cas9) would not be appropriate for investigating metamorphosis. Therefore, we chose to use a suH1R antisense oligonucleotide vivo-morpholino (suH1RMO), a methodology for functional k […]

library_books

RNA Interference (RNAi) Screening in Drosophila

2018
Genetics
PMCID: 5844339
PMID: 29487145
DOI: 10.1534/genetics.117.300077

[…] . These include UP-TORR for evaluation and visualization of existing RNAi constructs (), RSVP for browsing and evaluating RNAi stock phenotypes (), Next-RNAi for library design and evaluation (), and E-RNAi, a Web service for RNAi construct design and evaluation (). These tools also implement algorithms that assess target specificity and efficacy of reagents. […]

library_books

Functional Analysis of the FZF1 Genes of Saccharomyces uvarum

2018
Front Microbiol
PMCID: 5808186
PMID: 29467731
DOI: 10.3389/fmicb.2018.00096

[…] g sulfur metabolism, however, these differential genes concerning sulfur metabolism could not cause a sulfite tolerance difference as there was no significant difference between A9-FZF1-u and A9-FZF1-e.RNAi is an ancient mechanism present in plants, animals, and most fungi, and is considered to be a type of genetic immune system (Ghildiyal and Zamore, ; Malone and Hannon, ). In this study, however […]

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Reduction in Musca domestica fecundity by dsRNA mediated gene knockdown

2018
PLoS One
PMCID: 5771563
PMID: 29342168
DOI: 10.1371/journal.pone.0187353
call_split See protocol

[…] sRPS6) were produced as previously described for the mosquito Aedes aegypti []. Template selection and design of efficient dsRNA primers utilized the eRNAi web service [, http://www.dkfz.de/signaling/e-rnai3/] with standard parameters except for selection of “other organism” (Musca data not available for query in the eRNAi tool), amplicon size range 150–250 bp, and primer output to include appende […]


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E-RNAi institution(s)
German Cancer Research Center, Division Signaling and Functional Genomics, Heidelberg, Germany
E-RNAi funding source(s)
Supported by Studienstiftung (to T.H., PhD fellowship); Deutsche Forschungsgemeinschaft and the Helmholtz Association (partial); EC FP7 Program (Grant 201666).

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