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Our finding also shows that given prior knowledge from model organisms, even a single whole-exome sequence can be sufficient to discover a novel causal gene.
In conclusion, we have demonstrated the ability to integrate human disease data with publicly available genomic data from experiments performed in humans and in model organisms, even though the data had been generated to answer separate questions.
Our results indicate the importance of monitoring transcriptional regulations during recombinant protein production processes in real production strains instead of model organisms, even if there are no DNA microarrays available.
Whereas homologs of Alba1-3 were found in Arabidopsis with unknown functions, we did not identify homologs of Alba4-6 in model organisms even after relaxing the search parameters, suggesting a lineage-specific evolution.
As an alternative, next generation sequencing is being proposed as a technology for EST development in non- model organisms, even if sequences produced are just short reads which can difficultly be properly assembled in the absence of a genomic sequence to provide transcriptome characterization [ 15- 17].
A more detailed comparison of graphs that represent similar domains but are obtained with different methods can be found in Additional file 8. Clearly, our method can be applied to different domains of biological interest in different model organisms, even though some words of caution should be added.
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In these cases, all functional annotations were maintained allowing the user to choose the closest related transferred functional annotation, those that came from model organisms, or even to create a consensus based on all of them.
Conversely, SynFind enables comparative, in silico studies across a wide range of species to inform the study of specific genes within model organisms, where even today 30 34% of all genes have no annotated function (data from Arabidopsis thaliana, as cited in the National Plant Genome Initiative 2014 report).
Even more importantly, these changes further tie CR to key hormonal and cellular effectors of aging in model organisms, and possibly even in humans, since in humans and most other mammals females live longer than males [21], [22].
Working with non-model organisms is even more difficult.
However, the utility of these screens and the ability of techniques developed on model organisms to generalize to even closely related species has been questioned, for example from C. elegans to related parasitic nematodes.
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