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This shows that the effect of a genomic change does not have to be limited to the immediate vicinity of the change and could in fact result in both local and distant effects.
However, because it is difficult, and in many cases currently not possible, to determine the effect of a genomic variant on splicing or on the regulation of alternative splice isoforms from genomic sequence data alone, this remains a challenging task and requires the integration of information from different data types.
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It is possible that a greater genomic distance between paralogs on the same chromosome may serve to mimic the effects of a new genomic environment for one of the paralogs, akin to that for paralogs residing on different chromosomes.
To investigate this, we study in silico the relation between the effect of a gene's genomic entropy and its node degree.
In Gianola et al. [ 7] bivariate models are suggested, where the two traits are the traits of the genotyped and non-genotyped animals, respectively, and the genetic effect for a genotyped animal is the sum of a polygenic effect and a genomic effect whereas the genetic effect for a non-genotyped animal is just a polygenic effect (correlated with the polygenic effect of the genotyped animals).
GCs (low dose) during long-term treatment of RA provide most of their effects through a genomic action using the cGR and then interacting with the target genes that can result in increased expression of regulatory - including anti-inflammatory - proteins (transactivation) or decreased production of proinflammatory proteins (transrepression).
A strong effect of this genomic region was originally seen in Europeans[4], [6].
To test the possible effect of imputation, genomic prediction using a dataset of randomly selected SNPs from the imputed sequence data (ImputedHD) was compared with genomic prediction using the BovineHD dataset.
Here, we investigated the proximity effects of the nuclear periphery and pericentric heterochromatin on gene expression and additionally considered the effect of neighboring genomic features on a gene's nuclear position.
Overall, 14 of 24 of the tested deficiencies showed significant line effects at the 5% level, whereas 9 of 24 showed a significant effect of the genomic background on CCRT scores (with the term "genomic background" we refer to the involved deletion and balancer chromosomes; see Materials and Methods).
With the complexity of hybridization in both the solution phase and the immobilized surface phase, and between double strands of genomic DNA and single strands of cDNA, it is difficult to assess the effect of using genomic DNA as a common reference.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com