Searching journal content for articles similar to Chaffron et al. 20 (7): 947.

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  1. ...prior to the WGD. Analysis of individual TE insertions, however, revealed enrichment of TE-CREs originating from WGD-associated TE activity, particularly for the DTT (Tc1-Mariner) DNA elements. Furthermore, coexpression analyses supported the presence of TE-driven gene regulatory network evolution...
  2. ...for SNVs, both deep convolutional network approaches (Clair3 and DeepVariant) show excellent recall with both ONT and PacBio above 20× sequence. Irrespective of the sequencing platform, sequence coverage at 8× or lower shows significant reduction in performance and is not advised for large-scale sequencing...
  3. .... The lack of representation of gut-associated eukaryotic microbes likely undermines their utility in analyzing gut-derived metas. In addition, k-mer frequency merely represents metrics of simplified genomic contexts, whereas improved classification can be achieved using a convolutional neural network (CNN...
  4. ..., and physiological genomics, illuminating processes such as environmental adaptation, species diversification, social behavior, or sex determination (Rittschof et al. 2014; Capel 2017; Salzburger 2018; Kim et al. 2019; Xie et al. 2019; Greenway et al. 2020). Around two hundred fish species have reference assemblies...
  5. ...research should aim to examine the environmental and social conditions that trigger this reproductive mode and the underlying proximate mechanisms mediating the hermaphroditic development. Ultimately, it would be interesting to screen the natural population for the presence of individuals that originate...
  6. ...porin, ompF, were enriched in the presence of triclosan. Expression of acrAB and ompF are controlled by global stress response systems, marRA and soxRS; inserts within marR and soxR (both of which result in derepression of the cognate transcriptional activator genes, which then promote pump expression...
  7. ...on sample size as in traditional variational inference but depends on the network size (Shu et al. 2018). The VAE can be seen as an autoencoder with its latent space being regularized by a chosen prior distribution to make the inferred latent space more interpretable and to preserve global structure...
  8. ...expectations for when differential gene expression should matter. Here, we collated existing data into a gene-regulatory network (GRN) and performed developmental transcriptomics across different environmental conditions, genetic backgrounds, and mutants to assess the regulatory logic of mouth-form plasticity...
  9. ...of regulatory variants in farmed animals lags behind, although they have multiple advantages in developing GTEx-like resources, such as relatively easy pan-tissue collection across diverse biological and environmental contexts. Recently, the Farm Animal GTEx (FarmGTEx) project (Fang et al. 2025) has been...
  10. ...and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia; 12Department of Biological Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia; 13Department of Biotechnology and Biomedicine, Technical University of Denmark...
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