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Only 7 of the candidate sRNAs identified by microarray were also identified by the bioinformatic approach.
Differences in protein detection by mass spectrometry and transcript detection by microarray were also explored.
Most cases of activation or suppression of gene expression detected by microarray were also observed by RT-PCR, although the degree of the response was different for some genes (Supplementary Figure S2).
The majority of operons identified as members of the core modulon by microarray were also actively upregulated in the chinchilla ear during otitis media.
In the mouse brain DA time course (TC) and dose response (DR) several genes exhibiting either non-significant, very minor, or no changes by microarray were also analyzed by qPCR in order to provide insight into the effects of fold change and data quality on the correlation between these two methods.
We observed that microarray and qRT-PCR data, which were calculated based on the median of three repeats, showed good correlation at different water stress treatments and overall water stress conditions (r = 0.906 ~ 0.950) and most cases of up/down-regulated expression of genes identified by microarray were also detected by qRT-PCR.
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Reverse transcriptase polymerase chain reaction confirmed that several genes selected by DNA microarray were also overexpressed in clinical samples of malignant ascites.
In addition, 8 candidate genes not present on the microarray were also measured by qRT-PCR.
In order to validate the accuracy of the microarray data, the fads2, hmgcr, fabp7, angptl3, cxcl10, gck and lpl genes, which were spotted on the microarray, were also investigated by means of real-time PCR.
The two scFvs that showed strong recognition by antibody microarrays were also the best for ELISA.
The Sema3D and sema7A proteins that were up-regulated in our microarray, are also produced by C2C12 differentiating myogenic cells [ 40].
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