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The cancer specimens we tested demonstrate that RT-PCR results can be obtained even from FFPE samples that yield strongly degraded RNA, although the required RNA input may be higher than for intact RNA, and protocols may have to be adapted.
To assess the adequacy of the specimens, we tested each specimen by PCR for the β-globin gene.
Given a distance matrix D = (dij) for N specimens, we tested whether CRA cases and normals were separated in the distance matrix by a permutation test.
Most of the specimens we tested were from the upper respiratory tract, whereas the only reported APM PCR positive sample was from a lower respiratory bronchoalveolar lavage specimen (3 ).
Since most of the publicly available microarray data were generated using fresh tumor specimens, we tested the 38 genes that were reproducible between fresh and FFPE specimens to see if their expression pattern could be correlated with long-term clinical outcome data available in these public databases.
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Semi-quantitative RT-PCR revealed that hepaCAM was expressed at a similar level in all of the 28 normal bladder tissue specimens that we tested.
For each of the 5 clinical specimens that we tested, there were significantly fewer colonies of breast cancer cells when the co-culture was performed in the presence of fibroblasts that had been pre-treated with butein.
Urine samples were collected in sterile specimen containers, and we tested 0.1 mL of undiluted urine for H. capsulatum var capsulatum antigen detection using a polyclonal rabbit anti-histoplasma IgG antibody EIA (Durkin et al. 1997).
We tested specimens at a 1 250 dilution and detected visually negative specimens (after dilution) by thermal contrast, which demonstrated enhanced sensitivity.
The incorporation of paired specimens for every variable we tested enabled us to dissect the data set into the individual treatments during the data analysis.
We tested specimens of any hospitalized patient meeting the SARI case definition with history of exposure to a known or suspected H5N1 outbreak in poultry on priority basis and collected acute and convalescent serum for serologic testing at CDC.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com