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Plasmids containing the cloned fragments were isolated by the alkali method and digested with EcoRI.
DNA was isolated from overnight pure culture using the guanidine-EDTA-Sarkosyl method and digested with HindIII restriction enzyme.
The DNA was isolated using standard alkaline lysis method and digested with NotI (0.4 U/20 μl).
The BAC DNAs were isolated using a rapid alkaline lysis miniprep method and digested individually at 37°C for 3 h with 0.5 U Not I.
Closed circular DNA was extracted by the alkaline method and digested with PvuII to fragment all non-minicircle products of Cre recombination.
Proteins were extracted from intracellular and extracellular bacteria using the same method and digested for mass spectrometry as previously described [ 17].
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For aCGH, high quality genomic DNA (0.5 to 3 µg) was isolated from frozen tumor specimens using standard methods and digested with restriction endonucleases AluI and RsaI according to the Agilent Oligonucleotide Array-based CGH for Genomic DNA Analysis Version 4.0 protocol.
RNA was extracted from varying amounts of baboon liver tissue by using the guanidinium-acid-phenol method (21 ) and digested with RNase-free DNase I (Fermentas, Waltham, MA, USA) to remove any contaminating DNA.
Total RNA was extracted using the hexadecyltrimethylammonium bromide (CTAB) method [ 22], and digested with RNase-free DNase I (Promega, Madison, USA) at 37 °C for 30 min.
DNA was isolated using the CTAB method and then digested with 100 g/mL DNase-free RNase for 1 h at 37 °C to eliminate RNA contamination.
After colony PCR screening, plasmids were purified from the positive clones by the alkaline lysis method and then digested with HindIII/BamhI.
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