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ggCyto specifications

Information


Unique identifier OMICS_29807
Name ggCyto
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 1.9.12
Stability Stable
Requirements
methods, plyr, RColorBrewer, testthat, scales, data.table, rmarkdown, knitr, gridExtra, rlang, flowViz, flowWorkspaceData, flowStats, openCyto, ggplot2(>=2.2.1.9000), vdiffr, flowCore(>=1.41.5), ncdfFlow(>=2.17.1), flowWorkspace(>=3.17.24), ggridges
Maintained Yes

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Documentation


Maintainer


  • person_outline Greg Finak

Publication for ggCyto

ggCyto citations

 (4)
call_split

Expression of varied GFPs in Saccharomyces cerevisiae: codon optimization yields stronger than expected expression and fluorescence intensity

2016
Sci Rep
PMCID: 5080575
PMID: 27782154
DOI: 10.1038/srep35932
call_split See protocol

[…] nsformed with the amplified DNA fragment, and transformants were selected on YPD solid medium containing G418 (500 ng/mL) (Nacalai Tesque, Kyoto, Japan) to yield the UGW2 strain.DNA cassettes for the Gγcyto–Fc protein in the cytosol were integrated as follows. DNA fragments containing URA3-PPGK1-Gγcyto-Fc-TPGK1-THIS3 (THIS3: HIS3 terminator) were amplified from pUMGP-GγMFcH using the primer pair 6 […]

call_split

Gγ recruitment systems specifically select PPI and affinity enhanced candidate proteins that interact with membrane protein targets

2015
Sci Rep
PMCID: 4652169
PMID: 26581329
DOI: 10.1038/srep16723
call_split See protocol

[…] 26-GPTK using an In-Fusion HD Cloning Kit (Clontech Laboratories – Takara Bio, Shiga, Japan), yielding pUMGPTK-Gpa1N-Fc and pUMGPTK-Fc-Ste18C, respectively.The plasmids used for the expression of the Gγcyto-Z domain variants in the cytosol were constructed as follows. The fragment encoding Gγ lacking the lipidation sites (Gγcyto) was amplified from pUMGP-GγMFcH using primer 14 and primer 15. The f […]

library_books

Desired Alteration of Protein Affinities: Competitive Selection of Protein Variants Using Yeast Signal Transduction Machinery

2014
PLoS One
PMCID: 4171513
PMID: 25244640
DOI: 10.1371/journal.pone.0108229

[…] First, target ‘X’ is expressed as a fusion protein with the Gγ mutant (Gγcyto-X), as shown in . Then, another protein, ‘Y1’, is expressed as an anchored protein on the inner leaflet of the plasma membrane (). A third protein, ‘Y2’, is expressed in the cytosol (). By plac […]

library_books

Yeast One Hybrid Gγ Recruitment System for Identification of Protein Lipidation Motifs

2013
PLoS One
PMCID: 3724820
PMID: 23922919
DOI: 10.1371/journal.pone.0070100

[…] To compare expression levels among Gγcyto hybrids shown in , a GFP reporter was fused to the C-terminus of Gγcyto or wild-type Gγ. shows the fluorescence intensity of each yeast cell suspension. All Gγcyto hybrids were successfully sy […]

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ggCyto institution(s)
Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA
ggCyto funding source(s)
Supported by an NIGMS grant, [R01 GM118417-01A1], and a grant from the Bill and Melinda Gates Foundation, [OPP1032317].

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