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Samples were rotated overnight at 4°C and 10 µl of 50% Protein-A Agarose slurry (pre-washed in 0.1% BSA-PBS and equilibrated in IP buffer) was subsequently added per µg of DNA.
Sample buffer was subsequently added to a final concentration of 2% SDS, 5% β-mercaptoethanol, 10% glycerol, 0.03% bromophenol blue and 0.25 M Tris HCl, pH 6.8 and incubated for 5 min at 95°C.
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The peptide mixture was subsequently dried in a Speed-vac and redissolved in 1 mL of 100 mM potassium phosphate and 0.15 M NaCl (pH 7.5, PBS buffer), to which solution was subsequently added 200 μL of avidin-agarose resin (Sigma-Aldrich).
Plates were washed with washing buffer and the blocking buffer (4 % (w/v) BSA in PBS, pH 7.4) was subsequently added at 37°C for 1 h with gentle shaking.
The supernatant was subsequently added to an equal volume of Laemmli loading buffer.
DAPI was subsequently added for nuclear staining.
Afterwards, 40 µl of the DNA Release Buffer (DRB) containing proteinase K were added to each well and samples were incubated at 65°C for 15 min. Then, samples were incubated in 40 µl of Reverse Buffer (CP6) at 65°C for 30 min, 150 µl of Binding Buffer (CP7) were subsequently added to the wells, and the released samples, transferred to the F-Spin column, were centrifuged at 14 000 g for 20 s.
An additional 50 μL of 200 μM l-Arg, 10 μM CoCl2, in 100 mM HEPES buffer (pH 7.4) per well were subsequently added, and reactions were allowed to proceed for 1−5 min at 25 °C.
Citrate buffer was pre-heated and slides were subsequently added for 15 min (microwave 300 W).
The particles were transferred to PBS buffer, and the vaccine peptides or hydroxylamine (control) were subsequently added.
Protein samples (75 μg; extracted with CHAPS buffer containing protease and phosphatase inhibitors; Roche and Sigma, respectively), were subsequently added to each plate in duplicate.
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