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By expressing copies stable at different temperatures, function is maintained despite variation in environmental conditions.
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Following this approach, we successfully constructed plasmid vectors with leu1+, ade6+, his5+, and lys1+ markers with the low-copy stable plasmid pDblet as a backbone by applying GRC in S. pombe.
Single-copy stable clones were screened by southern blot, for which the DNA probe was prepared using the 0.8 kb HindIII fragment released from plasmid pDR-GFP.
PSY1 and PSY2 homoeologous copies showed stable expression profiles in the different tissues.
This causes multiple copies of stable mutant CLN3 mRNA isoforms, all of which appear to be non-functional.
To overcome this drawback, Lizeé et al. [ 15] described a RT-qPCR method to quantify lentiviral mRNA copies following stable transduction in cell culture.
As well as maintaining clones as single copies for stable, routine propagation pCC1Fos-based constructs can, when hosted in a suitable strain such as EPI300 or MW005 [ 6], also be transiently induced to approximately 50 copies per bacterial cell thus improving DNA isolation yield and purity.
The ratios of reads with reference sequence to mutated sequence are not exceeding ratios in copy number stable areas which supports the SNV-calling algorithm.
The transfected cells were selected at 400 or 800 µg/mL Zeocin™ for 15 days, and the presence of the transgene copy in stable Zeocin™-resistant foci was confirmed by PCR (Amplitaq® Gold, Applied Biosystems).
Using Illumina sequencing and SNP arrays we determined that the tumor of patient 1 is copy number stable whereas patient 2 showed variations which we used for the re-evaluation of identified high stringency mutations (Table S3).
These regions were denoted copy-number stable and contained 2312 human genes that were suggested to be dosage sensitive.
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