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Double size fractionation of partially digested DNA was done on a CHEF apparatus (BioRad).
DNA fragments were separated by electrophoresis in a 1% agarose III gel (Bio-Rad, China) with a CHEF apparatus (CHEF Mapper XA, Bio-Rad).
DNA used in the library construction was partially digested with EcoRI in the presence of EcoRI Methylase, and size fractionated by pulsed-field gel electrophoresis (PFGE) using a CHEF apparatus (BioRad).
DNA was partially digested with BamHI or EcoRI, size-fractionated in a clamped homogeneous electrical field (CHEF) apparatus (Bio-Rad), recovered by electroelution, and then ligated into the BamHI or EcoRI site of the pECBAC1 vector, respectively.
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T. brucei chromosomes were separated using a CHEF electrophoresis apparatus (CHEF-DR III, Bio-Rad), loading DNA from approximately 2×107 cells per lane.
Pulsed field gel electrophoresis was carried out using a Bio-Rad™ CHEF DRII apparatus (0.5X TBE buffer, circulated at 14°C).
Restriction fragments were separated by PFGE in 1% agarose gel (Bio-Rad, Hercules, CA, USA) in 0.5×TBE buffer (45 mM Tris, 45 mM boric acid, 1.0 mM EDTA, pH 8.0) for 22 h at 200 V at a temperature of 14°C, with ramp times of 2 to 40 s using the Bio-Rad CHEF MAPPER apparatus Bio-Rad Laboratoriess, Richmond, CA, USA).
Electrophoresis was performed on a 1% agarose gel with 0.5× Tris-borate-EDTA buffer by using a CHEF DRII apparatus (Bio-Rad).
PFGE was performed in 1% agarose gels, TEB 0.5 ×, at 14°C, 6 V/cm, angle 120 deg, in a CHEF DRIII apparatus (Bio-Rad).
The settings were 4 V/cm for 26 hours at pulse switch time ramped from 0.5-15 0.5-15 CHEF DRII apparatus (BinRad, HerCHEFs, CA, USA).
A standard 1% gel (1% pulse field-certified agarose in 0.5 × 90 mM Tris HCl/64.6 mM boric acid/2.5 mM EDTA [pH 8.3]) was run in a Bio-Rad CHEF DRII apparatus.
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