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However, public-domain microarray experiments (see, e.g., http://www.genevestigator.ethz.ch) indicate that the Arabidopsis PAPS3 gene is expressed preferentially during microgamete development and in mature pollen [12].
Transcription levels of LAC1, CAS3, LAC2, MPK1 and STE3 and ETF1α genes identified by RT-PCR correlated with expression levels identified in the microarray experiments (see footnote to Table S2).
Their total RNA was extracted and used for microarray experiments (see "Materials and Methods" for details).
The RNA-seq derived gene expression intensities were log2 transformed and otherwise treated similarly to the microarray experiments (see above).
We considered an association as significant, if it was found at least in four microarray experiments (see below).
As there is a risk of false discovery associated with microarray experiments (see above) it is important to verify data using an independent technology platform such as RTPCR.
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The sample cohort differs slightly from the cohort used in the microarray experiment (see table S1) due to small amount of RNA isolated from some samples, and the inclusion of extra samples which were not used on the 96 sample microarray.
Honey bee IDs refer to the cDNAs selected from the EST microarray experiment (see text).
In most cases, the qPCR results were similar to those of the microarray experiment (see Additional file 6), indicating the high quality of our microarray data.
A total of 10,990 distinct transcripts, represented in 15,208 array positions, were studied in this microarray experiment (see Methods for details).
These genes were shown to be responsive to ectopic Slou using whole-embryo in situ hybridization in spite of both being scored as non-responsive in the Slou gain-of-function microarray experiment (see supplementary material Table S1).
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