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GenomeRNAi specifications

Information


Unique identifier OMICS_03317
Name GenomeRNAi
Restrictions to use None
Data access File download, Browse
User data submission Allowed
Content license CC Attribution
Maintained Yes

Taxon


  • Invertebrates
    • Drosophila melanogaster
  • Primates
    • Homo sapiens

Publications for GenomeRNAi

GenomeRNAi citations

 (11)
library_books

Genome scale detection of positive selection in nine primates predicts human virus evolutionary conflicts

2017
Nucleic Acids Res
PMCID: 5737536
PMID: 28977405
DOI: 10.1093/nar/gkx704

[…] table of the overlap). Secreted (keyword KW-0964) and membrane (KW-0472) proteins were obtained from UniProt (). Innate immunity, PRR and virus–human PPI gene lists are described in (). We mined the GenomeRNAi database () for genes whose perturbation significantly affects viral infection or replication. Data on gene expression in mouse immune cell subsets were obtained from the Immunological Geno […]

library_books

Knocking down the obstacles to functional genomics data sharing

2017
Sci Data
PMCID: 5332007
PMID: 28248922
DOI: 10.1038/sdata.2017.19

[…] . Thus far, several obstacles have hindered this. While genome-scale arrayed RNAi screens have been performed and published for over a decade, there have been relatively few public data repositories. GenomeRNAi, initially described in 2007 by Michael Boutros and colleagues at DKFZ, was a pioneering database in this field . Yet, the majority of datasets have been acquired from publications and thu […]

library_books

A quantitative genome wide RNAi screen in C. elegans for antifungal innate immunity genes

2016
BMC Biol
PMCID: 4850687
PMID: 27129311
DOI: 10.1186/s12915-016-0256-3

[…] aded 14-11-14). RNAi clones for which no target gene was listed were excluded. Prediction of C. elegans orthologs was as above.We downloaded all RNAi screen datasets for Drosophila from version 13 of GenomeRNAi.org [] and manually collated very similar classes to give 110 datasets. Prediction of C. elegans orthologs was as above.We extracted the genes corresponding to 136 KEGG_pathways (July 2015) […]

library_books

A genetic interaction map of cell cycle regulators

2016
Mol Biol Cell
PMCID: 4831891
PMID: 26912791
DOI: 10.1091/mbc.E15-07-0467

[…] Drosophila genes not covered by FlyBase (). Primer and dsRNA sequence information, target mappings, and the analysis of specificity and additional features of the dsRNA designs are available through GenomeRNAi (www.genomernai.org; ). For screening, the library was aliquoted in 384-well plates (black/clear; BD Falcon) with an average of 250 ng of dsRNA/well in 5 μl of water. […]

library_books

eIF4A inactivates TORC1 in response to amino acid starvation

2016
PMCID: 4868951
PMID: 26988032
DOI: 10.15252/embj.201593118

[…] nted with FBS (10%) and penicillin‐streptomycin (1%). Cells were harvested 4 to 5 days later. dsRNA reagents used in the screen are part of the BKN library designed with E‐RNAi (Horn & Boutros, ) and GenomeRNAi (Schmidt et al, ). dsRNAs were produced by in vitro reverse transcription of PCR products using T7 RNA polymerase, followed by cleanup with an RNA purification column (Macherey‐Nagel).Oligo […]

library_books

Functional fingerprinting of human mesenchymal stem cells using high throughput RNAi screening

2015
Genome Med
PMCID: 4481116
PMID: 26120366
DOI: 10.1186/s13073-015-0170-2

[…] transformed values was calculated and variance was adjusted by experiment. Summarized replicates were determined and z-scores based on plate mean were calculated. Screening data were uploaded to the GenomeRNAi database and are publicly accessible under the accession number GR00342 []. […]

Citations

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GenomeRNAi institution(s)
Division Signaling and Functional Genomics, German Cancer Research Center (DKFZ) and Department of Cell and Molecular Biology, Medical Faculty Mannheim, Heidelberg University, Heidelberg, Germany
GenomeRNAi funding source(s)
European Community’s Seventh Framework Programme [FP7/2007-2013] (CancerPathways); Helmholtz Alliance for Systems Biology

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