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After bisulfite treatment of DNA, "hot start" PCR was performed for 35 cycles consisting of denaturation at 95°C for 1 min, annealing at Ta for 1 min, and extension at 72°C for 1 min, followed by a final 72°C for 10 min extension for all primer sets.
After bisulfite treatment of DNA, "hot start" PCR was performed with a denaturalization at 95°C for 10 minutes and for 35 cycles consisting of denaturation at 95°C for 1 min, annealing at the specific temperature for each gene for 1 min, and extension at 72°C for 1 min, followed by a final 10 min extension for all primer sets.
The PCR was performed with initial denaturing at 94°C for 3 min followed by 40 cycles of denaturing at 94°C for 1 min, annealing at 55°C for 2 min, extension for 3 min at 68°C, and a final extension at 68°C for 10 min. The MGMT CpG island is 762 bp in length.
The conditions of PCR used to amplify the genes for 35 cycles were: denaturation at 94°C × 2 min and 94°C × 30 s; annealing at 55°C × 1 min; extension for 68°C × 1 min; final extension at 68°C × 7 min.
The reverse-transcribed cDNA was diluted by 1 10 ratio and a portion (1 μl) was subjected to qPCR under the following conditions: 40 cycles of 95°C for 30 s, gene-specific annealing temperature (58 - 65°C) for 1 min, extension for 30 s at 72°C, and a final extension at 72°C for 10 min. A non-template control and endogenous loading control (chicken GAPDH) were used for the relative quantification.
The PCR conditions were: 92°C for 2 min (initial denaturation), then 92°C for 10 sec (denaturation), 48 51°C for 30 sec (annealing) and 60°C for 10 min (extension) for 10 cycles, followed by 92°C for 10 sec, 48 51°C for 30 sec, and 60°C for 10 min for 20 cycles and a final extension at 60°C for 10 min.
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A PTC-100 thermal cycler (MJ Research, Waltham, Massachusetts, USA) was used with the following program: 95°C for 1 min, followed by 25 cycles of denaturation at 94°C for 40 s, 60°C for 1 min, extension of 72°C for 2 min, and a final extension of 72°C for 5 min. The amplification products were cloned into the pGEM-T Easy Vector (Promega Corporation).
'Hot start' PCR was performed for 35 cycles consisting of denaturation at 95°C for 1 min, annealing at 60°C for 1 min, and extension at 72°C for 1 min, followed by a final 7-min extension for all primer sets.
The PCR conditions were as follows: initial denaturation at 94°C for 2 min followed by 30 cycles of denaturation at (95°C for 45 s), annealing (56°C for 1 min), extension (72°C for 90 s), and a final extension at 72°C for 10 min.
PCR reactions were composed of 30 cycles, carried out under the following conditions: denaturation, 94°C for 1 min; annealing, 60°C for 1 min; extension, 68°C for 8 min. The PCR products were treated with DpnI to digest the template DNA and used to transform E. coli EC100D competent cells.
Cycling for "Pgp+" and "Pgp-" was: 1 cycle at 95°C for 7 min, followed by 37 cycles at 94°C for 1 min, annealing at 56°C for 1 min, extension at 72°C for 1 min; cycling for VEGF was: 1 cycle at 95°C for 7 min, followed by 37 cycles at 94°C for 1 min, annealing at 64°C for 1 min, extension at 72°C for 1 min. The PCR products were separated on a 4% agarose gel and visualized with ethidium bromide.
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