Multi-species codon usage analysis tool for gene lists. Replaces the defunct CUT tool (Doyle et al., Methods 2016). Analyzes mono-, di-, and tricodon patterns in user-provided gene lists versus ...

Dependencies: python (inlcuding numpy, ete3, pandas, and intervaltree libraries), HMMER version 3, MAFFT. Wise2 is also required to use the "full_pseudoexon_search ...

Tuberculosis, caused by Mycobacterium tuberculosis, is a severe and persistent global public health issue, particularly exacerbated by the emergence of multidrug-resistant and extensively ...

We analyzed transcriptomic-weighted data from four mouse strains across three different germ layer tissues (liver, heart, and eye) and through embryonic stages. Applying a multifaceted approach, we ...

ARC Centre of Excellence in Synthetic Biology, Brisbane, Queensland 4001, Australia Centre for Agriculture and the Bioeconomy, Queensland University of Technology, Brisbane, Queensland 4001, Australia ...

Recombinant adeno-associated viruses (rAAVs) are the predominant gene therapy vector. Several rAAV vectored therapies have achieved regulatory approval, but production of sufficient rAAV quantities ...

1 Behavioral Neuroscience Program, Palm Beach Atlantic University, West Palm Beach, FL, USA. 2 Hebrew University of Jerusalem, Jerusalem, Israel. 3 Department of Psychology, Palm Beach Atlantic ...

Patterns in DNA sequence variation can reveal functional adaptation. Synonymous codon usage is a model system for studying nearly neutral evolution, and we combine genome-scale polymorphism data from ...