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In yet another component, we performed clinical hematology counts and pre- and post-sorting flow cytometric analysis of the sorted cell populations to measure the clinical relevance and efficiency of the experimental sampling conditions.
Gene expression analysis of the sorted tumor cells revealed that the Aldefluor+ tumor cells has decreased expression of transporter associated with antigen processing (TAP) genes and co-stimulatory molecule CD80, which would decrease susceptibility to T cells.
The sorted cells were further analyzed by FACS with Hoechst 33342 staining (Fig. 2c), live fluorescent imaging of independent cells was carried out (Fig. 2d), and western blot analysis of the sorted AmCyan or mCherry-positive populations was performed (Fig. 2e).
Analysis of the sorted populations showed purities ranging from 91 to 97%.
Purities were determined by flow cytometry analysis of the sorted cells on the same instrument with the same instrument settings.
Next, we carried out qRT-PCR analysis of the sorted MiaPaCa2 cells to assess whether there is any difference in these populations as to the expression levels of miR-34 and its target genes.
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Re-analysis of the sorted fractions confirmed the successful separation of cells expressing IL-2 from cells not expressing IL-2, with a purity of>98% for both the IL-2 secreting and non-secreting cell populations.
In addition to the expression analysis of the FACS-sorted cells, we have also performed genome-wide analysis by CGH-arrays, FISH studies at PTEN and EGFR loci, and MLPA at the MGMT promoter.
Q-methodology involves 3 stages: developing a set of statements to be sorted; sorting of those statements by participants along a continuum of agreement; and analysis and interpretation of the sorted data [ 28, 29].
Analysis of the cytokine production of sorted CCR6+ Th cells clearly showed that this Th cell fraction was the only source of IL-17 protein within the Th cell population.
Purity of sorted populations was assessed by analysis of sorted populations by flow cytometry immediately after the sort and also by analysis of DNA content in fixed sorted cells by PI incorporation.
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