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After lysis, supernatant was taken and DNA was extracted by chloroform:Isoamyl alcohol method and precipitated by ethanol.
CTAB-NaCl (10% CTAB (Sigma, USA), 0.7 M NaCl) was added and the incubation was continued at 65°C for 20 min. Purification of genomic DNA was carried out according to the standard phenol chloroform method and precipitated using 0.6 V of isopropanol.
After digestion by proteinase K, DNA was extracted and purified by the phenol/chloroform/isoamyl alcohol method and precipitated in ethanol, as previously described[ 20].
After immunoprecipitation, the DNA was recovered using agarose beads, incubated with Proteinase-K at 45°C for 1 h, purified using the phenol/chloroform method, and precipitated with ethanol.
After mixing an approximately equivalent weight of fresh leaves and flowers, total RNA was extracted using a modified CTAB method and precipitated with 5 M LiCl2 at -20°C overnight, and the resulting RNA pellets were suspended in about 100 μl DEPC-treated water.
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After incubation for 30 min at 37°C, the DNase I activity was inhibited by addition of 5 mM EDTA (#351-027-721, Quality BioloGaithersburgersburg, MD) and incubation at 65°C for 10 min. RNAs were purified a second time by phenol chloroform:isoamyl alcohol (25:24:1; #AC327115000) method and ethanol precipitated.
Rotavirus double-stranded RNA (dsRNA) was extracted directly from stool by the TRIzol method (Invitrogen, Carlsbad, CA, USA) and precipitated with isopropanol.
Pellets were resuspended in sterile water and treated with 10 µL (20 mg/mL) of proteinase K. DNA was extracted by using the phenol chloroform:isoamyl alcohol (25:24:1) method (Invitrogen, Carlsbad, CA, USA) and precipitated with isopropyl alcohol.
To confirm the direct association between HIV-1 virions and Anx2, we immunoprecipitated virions using HIV-IG™ (see Materials and Methods) and analyzed precipitated virions for the presence of Anx2 by SDS-PAGE and western blot.
DNA was then extracted and precipitated using the phenol/chloroform and ethanol method.
The supernatant (named "extracellular fraction") was collected and precipitated with the trichloroacetic acid (TCA) method.
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