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If the microarray analysis yielded several significantly differentially expressed transcripts that all encoded one gene, only one entry of this gene was used for significance testing.
Microarray analysis yielded similar pathways to those seen with the transcriptional analysis, in particular ETC, for both DOX and DMNQ (Figure 3B).
Microarray analysis yielded distinct patterns for 295 genes differentially expressed in at least one condition (differentially expressed genes, DEGs) (Figure 2; Dataset S1).
Samples selected for microarray analysis yielded RNA integrities greater than 8.0 using an Agilent Bioanalyzer.
In one case, qRT-PCR and DNA microarray analysis yielded deviating results (OE5071F).
Similarly, microarray analysis yielded individual signatures for MM plasma cells and non-malignant plasma cells as well.
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Microarray analysis yields a large amount of data; therefore, it is important to validate differential expression by independent methods.
The cell lines under investigation showed a significant difference in doubling time but no difference in growth factor dependence. Microarray data analysis yielded a total of 451 differentially expressed genes.
This RNA was then converted into large quantities of single stranded DNA through the use of NuGEN WT-Ovation™ Pico RNA Amplification System, originally designed to process samples for microarray analysis, which yielded between 150 350 ng/µl of DNA with the total amount obtained ranging from 4.5 to 10.5 µg.
Although conventional microarray analysis has yielded novel insights, important information may be missed.
Due to the low degree of sequence annotation, the combination of microarray and 454 sequencing analysis yielded only a limited number of new contigs after assembly of 454 cDNA sequences with existing expressed sequence tags (ESTs) even though the number of non-redundant human- A. mexicanum orthologous sequences was increased considerably [ 18].
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