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Eight genes showing discrete expression patterns were selected for validation by QPCR analysis.
Nine genes at the FDR cutoff (.049-.05) with low expression and fold-changes, and falling into the three main expression patterns, were selected for verification.
Four genes, OsAGO14, OsRDR3, OsRDR4 and OsDCL3a, showing discrete expression patterns were selected for validation of microarray expression profiles by QPCR analysis.
Ten paired lncRNAs and their associated mRNAs (PPP2R5C, STAM, TACC2, EML4, PAM, TATDN1, NBPF10, ADAMTS15, AQPEP, and PDE4B) with different expression patterns were selected from microarray data (Table 3).
Taken together, 9487 and 6524 unigenes were identified as DEGs with an absolute value of log2 Ratio ≥ 1 and FDR (false discovery rate) ≤ 0.001 at one or more time points during drought and cold stresses, respectively.To validate the RNA-Seq results, 11 DEGs with different expression patterns were selected for RT-qPCR (real-time quantitative PCR) analysis.
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A subset of 27 drought-adaptive DEGs, identified in the CSA:Drought, with various expression patterns, was selected for qPCR validation in B. distachyon.
Using the Genevestigator Refgene tool with Arabidopsis microarray data from Potyvirus-infected Arabidopsis as input data, candidate reference genes with stable expression pattern were selected as potential internal controls for the cassava – Cassava brown streak virus (CBSV; genus Ipomovirus; family Potyviridae) pathosystem.
For each transgene one line with a representative subcellular BZR1 or BES1 expression pattern was selected from at least 20 independent lines.
In order to verify the gene expression patterns observed in the microarray analysis, several genes with diverse patterns were selected and confirmed by Q-PCR.
These patterns were selected with an initial constraint that Hydractinia male and female gonozooid expressions are statistically equivalent.
Significant combined expression patterns were used to select metabolic pathways showing shifted regulation of the aggressive tumors.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com