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DESKGEN specifications

Information


Unique identifier OMICS_08498
Name DESKGEN
Software type Framework/Library, Package/Module
Interface Graphical user interface
Restrictions to use None
Input data Gene name
Operating system Unix/Linux
License Other
Computer skills Medium
Stability Stable
Maintained Yes

Subtools


  • DESKGEN Cloud
  • DESKGEN CRISPR Libraries

Versioning


No version available

Documentation


Maintainer


  • person_outline DESKGEN Team

DESKGEN citations

 (9)
library_books

Optimized RNP transfection for highly efficient CRISPR/Cas9 mediated gene knockout in primary T cells

2018
PMCID: 5839763
PMID: 29436394
DOI: 10.1084/jem.20171626

[…] Routinely, three crRNAs were selected per target using the DESKGEN (www.deskgen.com) online platform. The target area was limited to the first ∼40% of the coding sequence, and preference was given to guides targeting different regions within this area. Guides […]

library_books

Trithorax dependent changes in chromatin landscape at enhancer and promoter regions drive female puberty

2018
Nat Commun
PMCID: 5754362
PMID: 29302059
DOI: 10.1038/s41467-017-02512-1

[…] A panel of five sgRNAs targeting the putative Kiss1 enhancer site 1 was designed and cloned. The sgRNAs were designed using an online tool (https://www.deskgen.com/) searching for the PAMs NNGRRT and NNGRR. Following phosphorylation and annealing of each oligonucleotide set, the double-stranded products were digested with BsaI (Eco31I), and ligated i […]

library_books

An efficient and scalable pipeline for epitope tagging in mammalian stem cells using Cas9 ribonucleoprotein

2018
eLife
PMCID: 5947990
PMID: 29638216
DOI: 10.7554/eLife.35069.034

[…] annotated using SnapGene and the ~200 bp around the stop codon were used as an input for guide RNA designing. We designed guide RNAs using either the web-based tool form Desktop Genetics (https://www.deskgen.com/landing/) or our own bioinformatics ‘Tag-IN’ tool (below). High scoring guide RNAs were picked for synthesis (i.e those with cut sites in the 3’UTR, preferably within 8–15 bp distance from […]

library_books

R spondins can potentiate WNT signaling without LGRs

2018
eLife
PMCID: 5800842
PMID: 29405118
DOI: 10.7554/eLife.33126.017

[…] Oligonucleotides encoding single guide RNAs (sgRNAs) () were selected from one of two published libraries (; ) or designed using the ‘Guide Picker’ tool of the DESKGEN Cloud CRISPR design software (https://www.deskgen.com/landing/cloud.html). Oligonucleotides were cloned into the single cloning site of pX330 according to a published protocol () (original ver […]

library_books

Parallel genome wide screens identify synthetic viable interactions between the BLM helicase complex and Fanconi anemia

2017
Nat Commun
PMCID: 5663702
PMID: 29089570
DOI: 10.1038/s41467-017-01439-x

[…] ng: For the generation of NQO1-CRISPR knock-out cells, the Cas9 double-nickase system was used. By combining the CRISPR Design Tool (http://crispr.mit.edu/) and the Desktop Genetics tool (https://www.deskgen.com/landing), we selected a pair of two guide RNA (gRNAs) sequences of 20 base pairs each, targeting exon 3 of the human NQO1 gene (ENSG00000181019) with an offset distance of 9 base pairs. Th […]

library_books

Systematic discovery of mutation specific synthetic lethals by mining pan cancer human primary tumor data

2017
Nat Commun
PMCID: 5460027
PMID: 28561042
DOI: 10.1038/ncomms15580

[…] A total of 20 bp oligonucleotide sequences targeting exon 4 of the ACACA locus were designed using the Desktop Genetics platform (Deskgen.com) and four target sequences were chosen based on Rule Set Number 2. Annealed synthetic DNA oligos for each target sequence were phosphorylated and cloned into pX330-U6-Chimeric_BB-CBh-hSpCa […]

Citations

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DESKGEN institution(s)
Desktop Genetics, London, UK

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