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chevron_left Quality control Metabolite quantification Metabolite identification Peak detection Spectral visualization chevron_right
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SIMAT specifications

Information


Unique identifier OMICS_09685
Name SIMAT
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.0.0
Stability Stable
Requirements
grid, BiocGenerics, ggplot2, RUnit, R(>=3.0.0), reshape2, mzR, Rcpp(>=0.11.3)
Maintained Yes

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Maintainer


  • person_outline R. Nezami Ranjbar <>

Publication for SIMAT

SIMAT in publications

 (22)
PMCID: 5849607
PMID: 29535317
DOI: 10.1038/s41598-018-22200-4

[…] above. to counteract aggregation and settling, tio2-np were treated in an ultrasonication bath for 30 minutes prior to use., silicon wafers with one polished side and 50.8 mm (2 inch) diameter (simat) were immersed in concentrated (96%) sulfuric acid for at least 15 minutes for cleaning and then thoroughly rinsed with distilled water prior to spin coating. all spin coating steps were done […]

PMCID: 5525289
PMID: 28738898
DOI: 10.1186/s12915-017-0400-8

[…] acid solutions in vitro [–]. a recent proteomics analysis revealed several novel biosilica-associated proteins with unknown functions in the diatom thalassiosira pseudonana []. one of these, simat7, differs markedly from silaffins, cingulins, and silacidins regarding amino acid composition and predicted secondary structure. in the present work, we have investigated the function of simat7 […]

PMCID: 5501833
PMID: 28687794
DOI: 10.1038/s41598-017-04921-0

[…] new gene families with putative roles in si metabolism and frustule synthesis were identified, including 15 transmembrane proteins with common domain structure that included the frustule protein simat7. this study provides a high-resolution gene expression map of the dynamic responses to si availability, and lays the foundation for detailed functional studies of si-related processes., two […]

PMCID: 5551172
PMID: 28684720
DOI: 10.3390/ijerph14070734

[…] network established by the comision ambiental metropolitana of mexico city to monitor compliance with ambient air quality standards; this network is part of the sistema de monitoreo atmosférico (simat), a program responsible for ongoing measurements of the main air pollutants in mexico city., we constructed a gev model of the pm10 maxima in the mexico city metropolitan area, using […]

PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] and 13c-enriched. metaboqc [] is a quality control approach that evaluates alignment and suggests optimal parameters for feature detection based on discrepancies between replicate samples, and simat [] allows the selection of the optimal set of fragments and retention time windows for target analytes in gc–single ion monitoring–ms-based analysis., metabolomics datasets are usually […]

SIMAT institution(s)
Department of Electrical and Computer Engineering, Virginia Tech, Arlington, VA, USA; Department of Oncology, Georgetown University, Washington DC, USA

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