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ReadqPCR specifications

Information


Unique identifier OMICS_03936
Name ReadqPCR
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 1.26.0
Stability Stable
Requirements
methods, Biobase, R(>=2.14.0), affy, qpcR
Maintained Yes

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Documentation


Publication for ReadqPCR

ReadqPCR in publications

 (11)
PMCID: 5622125
PMID: 28963513
DOI: 10.1038/s41598-017-10861-6

[…] calculated using the rq manager 1.2.1 (applied biosystems). measured cq values were corrected for primer efficiency cqe = cq(log(1+e)/log2) and further analyses were performed using the r packages readqpcr (version 1.16.0) and normqpcr (version 1.16.0). the geometric mean of the two reference genes was used to normalize the expression of target genes. relative gene expression was calculated […]

PMCID: 5125708
PMID: 27893858
DOI: 10.1371/journal.pone.0167367

[…] by melting curve analysis. quantitation cycle (cp) values were obtained using the absquant/2nd derivative max method of the lightcycler® 480 software and were further processed using the r packages “readqpcr” and “normqpcr”. cp values from technical triplicates were averaged. several candidate internal reference rnas were analysed in preliminary experiments using the genorm algorithm [], […]

PMCID: 5100294
PMID: 27821494
DOI: 10.1083/jcb.201606042

[…] 11760; invitrogen) according to the manufacturer’s protocol on a real-time pcr viaa7 instrument (applied biosystems). quantitative pcr analysis was done in the open source rstudio software using the readqpcr and normqpcr (). open source packages are available on the bioconductor website. for each gene, three to five independent cell preparations were used., fig. s1 shows additional images […]

PMCID: 5382938
PMID: 27797806
DOI: 10.1093/brain/aww242

[…] mix (thermo fisher). we performed at least two technical replicates in one qpcr run (four replicates in two qpcr runs for actb, pcp2 and stk32b). we calculated expression using bioconductor packages readqpcr and normqpcr. technical replicates were averaged, then gene-expression was normalized using actb and pcp2 and expression differences assessed using student’s t-test., all discovery samples […]

PMCID: 4926725
PMID: 26965559
DOI: 10.1016/j.eururo.2016.02.058

[…] levels of 96 inflammatory mediators in disease versus control tissue calculated using the δct (cycle time) method and normalised against the geometric mean of three housekeeping genes using the readqpcr and normqpcr packages ., we used principal component analysis with eigenvalue decomposition to visualise biologic variability within the patient group . we identified patient clusters based […]


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ReadqPCR institution(s)
Institute of Structural and Molecular Biology, University College of London, London, UK

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