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Using the prepared primer, real-time PCR was conducted to select the primer set that had the least cycle threshold (Ct) and which showed a single peak in the melting curve analysis.
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In addition, we prepared primers yielding shorter amplification products (232 292 bp) than those (435 480 bp) obtained with the originally reported primers.
Six different constructs of hemagglutinin with N or C-terminally positioned WW domains were prepared (primers are shown in Additional file 1: Table S1).
For each PCR run, a master-mix was prepared, primers and probes for WIF1, NPY and PENK have been designed, and a primer/probe set of albumin not containing CpG sites was used for normalizing the DNA amounts (Additional file 2: Table S2).
Taqman probes and primers prepared using Primer express software and Taqman gene expression assay kits (Applied Biosystems, USA) were used for the analysis.
We prepared 2 primer pools for the 7 BWAs of interest, and each pool contained 1 primer pair specific for each BWA. Figure 2 shows the amplification of BWAs in each mixed culture sample using primer pools I and II.
To construct multiplexed sequencing libraries on the Fluidigm Access Array, we first prepared a primer mix for each multiplex library such that the final concentration of each primer in the mix was 2 μM (0.5 μM for the 104-loci Alu libraries).
Freshly annealed primers (5'-CATACTGCGGGGGTGATTGTTCAGGATCATACTGCG-3' and antisense), containing a 5' conjugated biotin (IDT) on the sense strand (primers were previously used by another lab to confirm hSRY-DNA binding [ 34]) were prepared in primer annealing buffer (10 mM Tris, 1 mM EDTA, 100 mM NaCl, pH 8.0) at a final concentration of 10 μM.
LNA-modified DNA has been prepared by primer elongation [31], [32], PCR and in vitro transcription [33].
First strand cDNA was prepared and primer pairs were selected as described below.
Templates for transcription were prepared by primer extension and PCR amplification using synthetic DNA corresponding to ribozyme sequence.
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