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Immunoblot analyses showed that all Gli2 variants we generated are expressed as predicted.
To accurately determine the levels of specific eIF4G variants, we generated isoform-specific, polyclonal antibodies using peptides corresponding to a unique sequence from the N-terminus of each isoform (see Materials and Methods).
Having established functionality and specificity of the sTRAIL variants, we generated adenoviral vectors with expression cassettes containing the TRAIL-R-specific sTRAIL forms.
In order to separate the two alleles in the area of the detected sequence variants we generated a PCR product from genomic DNA using oligonucleotides flanking the variant sites: LPL_exon8.F: 5′-AGCTATTTATATTTGGAGAG-3′ and LPL_exon8.R: 5′- CATACAGTAATAAATACAAGGTT-3′.
To determine whether the S162A and Q266I substitutions were effective in all natural hSTING variants, we generated the respective single and double substitutions for all major hSTING alleles (listed in Figure 3D) and tested them for DMXAA recognition.
To determine the frequency of the appearance of swa-resistant prion variants, we generated eight prion clones by end point dilution in cell culture, propagated them for various numbers of doublings and assessed the populations for 'swa competence', that is, their ability to give rise to swa-resistant populations when challenged with swa.
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To unambiguously determine the physiological impact of the Mdm4-S splice variant, we generated a mouse with a targeted deletion of the Mdm4 exon 6, thereby creating an obligatory exon skipping.
When information changes on a previously reported variant, we generate an "alert".
The most active sc-rtTA variant that we generated is 30-fold more active than the original sc-rtTA, and almost as active as the regular rtTA.
In an effort to understand the function of this variant protein, we generated a mouse line in which BMP2 is expressed and functions normally, but nBMP2 is excluded from the nucleus.
From the resulting variant dataset, we generated a stringent dataset for downstream analyses by applying a minim 15× coverage filter, quality by depth minimum of 10 and Fisher strand (Phred-scaled p-value using the Fisher's Exact Test to detect strand bias) smaller than 20, using the GATK SelectVariants.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com