MCMC.qpcr statistics

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MCMC.qpcr specifications

Information


Unique identifier OMICS_03934
Name MCMC.qpcr
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Version 1.2.3
Stability Stable
Requirements
ggplot2, coda, MCMCglmm
Maintained Yes

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Maintainer


  • person_outline Mikhail V. Matz <>

Publication for MCMC.qpcr

MCMC.qpcr in publications

 (8)
PMCID: 5789708
PMID: 29378514
DOI: 10.1186/s12864-017-4400-4

[…] at 70 °c for 30 s. raw qpcr data for both the mrna and mirna samples were analysed using generalized linear mixed models based on lognormal poisson error distribution as described in the r package mcmc.qpcr [, ]., a breed-wise validation was performed for the gdf9 gene to confirm the population-level variation, particularly at position 5:41,841,285. this procedure was performed using genomic […]

PMCID: 5557731
PMID: 28855890
DOI: 10.3389/fendo.2017.00195

[…] amplification efficiency for the primer pair was determined using standard curves made from serial dilutions of cdna., statistical tests were performed using r v. 3.1.0. we used the r package mcmc.qpcr to determine relative gene expression for each sample. 18s was used as a control gene, and other target genes measured within the same region were included in the normalization analysis. […]

PMCID: 5454005
PMID: 28572677
DOI: 10.1038/s41598-017-02685-1

[…] with template a. millepora cdna. primer efficiencies were determined by amplifying a series of two-fold dilutions of a. millepora cdna and analyzing the results using function primeff of the mcmc.qpcr package in r. briefly, ct (threshold cycle) results were plotted as ct vs. log2[cdna], and amplification efficiencies (amplification factor per cycle) of each primer pair were derived […]

PMCID: 5511362
PMID: 28717391
DOI: 10.1111/eva.12487

[…] of 95°c for 15 s and 60°c for 1 min. all reactions were performed in duplicate. we analysed relative gene expression using generalized linear mixed models with a poisson‐lognormal distribution using mcmc.qpcr package (matz, wright, & scott, ) implemented in r v.3.2.2. briefly, cqs of each well were transformed into molecule counts taking the efficiency of each amplicon into account […]

PMCID: 5371298
PMID: 28355291
DOI: 10.1371/journal.pone.0173350

[…] support facility at michigan state university on an applied biosystems prism 7900ht (thermo scientific, new york, ny usa)., all analyses were performed in r (v3.1.3) using the specialized package mcmc.qpcr []. in this analysis, raw qrt-pcr data (i.e. ct values) is represented as molecule counts and described under a poisson-lognormal error using generalized linear mixed models. […]


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MCMC.qpcr institution(s)
Department of Integrative Biology, University of Texas at Austin, Austin, TX, USA

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