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This may even hold for applying Sanger sequencing for validation purposes, although this aspect was not considered in our study.
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We applied Sanger sequencing of both DNA strands to obtain the partial sequences of 30 protein-coding loci (Table S2).
To experimentally validate the predicted mutant spots lying within the region of interest, we applied Sanger sequencing on PCR fragments amplified from the six representative SNP candidates numbered 1, 4, 8, 9, 11 and 12 in Fig. 2, comprising the range of graphic patterns and BOD scores.
This approach was initially applied Sanger-based EST sequencing [ 12], and subsequently to next-generation libraries [ 11].
We also applied Sanger technology for resequencing all length variable genes, which in turn improved the sequence quality.
Due to the requirement for large datasets, classification methods based on parsimony and likelihood trees typically applied on Sanger-sequenced full-length 16S rRNA genes are not feasible.
Depending on the target sequences this method can be successfully applied to search in Sanger sequencing data sets and new generation 454 pyrosequencing data sets with read lengths starting from 450 bp (see Methods S4).
Q5 high-fidelity DNA polymerase was used for all PCR reactions to minimize the introduction of possible error bases, and Sanger sequencing was applied for fidelity confirmation.
Sanger sequencing was applied on an AB3730 DNA analyzer, and sequence assembly was performed with DNASTAR7.0 software.
At MYGAL, Sanger sequencing was applied to all gene exon, including exon intron boundaries (at least 20 base pairs).
In addition, recently published studies have applied no other method but Sanger sequencing for deep sequencing of extremely specific regions in smaller numbers of samples.
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