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Rolling circle amplification is an established technique for amplification of small samples of template DNA mixtures [ 1- 4].
Initially, 50-ng samples of template DNA were collected from FFPE tissue samples and were amplified using polymerase chain reactions (PCRs) with a biotin-labeled primer.
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Our content analysis of a Canadian sample of template texts and accompanying IRB instructions addressing the consent process for genetic studies showed compliance with the requirements set forth by the TCPS2.
Triplicate or quadruplicate samples of each template were analysed.
Standard samples of known template amounts were used to quantify PCR products.
A positive control (a sample known to be positive for the template) and a negative control (a sample devoid of template) were included in each reaction.
Even though 5 ng is allowed for proper amplification of good quality samples, an excess of template (about 70 ng) was used to overcome the challenge posed by compromised DNA quality.
Each sample of DNA template was analysed in triplicate for both Beta-globin and HPV16 DNA sequence for 40 cycles.
Five μl (approximately 1 μg) of each sample of the template DNA was mixed with the ready-to-use primers and hybridization probes, enzyme solution (Taq DNA polymerase) and dNTP reaction mix included in the kit in a final volume of 20 μl.
For each sample, 20 ng of template was amplified in PCR reactions carried out in triplicate on an ABI PRISM 7900 using TaqMan® Gene Expression Assay (Applied Biosystems).
For a target FFPE DNA sample, 5 ng of template (nominally determined by NanoDrop) was input into QFI-PCR, and the Cq output was converted to a 'functional' copy number.
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