The Persephone version, published recently, presents a few improvements. Handling BCF Files In addition to VCF, Persephone now directly supports BCF files imported into the main application. Users can add variants by referencing remote BCF files (with an index) or by loading...
Synteny regions between maps are revealed by linking orthologous genes or common markers. Now you can export these pairs by clicking the button Export visible data in Synteny matrix form. Select two genomes, optionally zoom in on a region of...
If you design an assay targeting a specific allele, it is important to know the genomic sequence neighborhood. A new addition to the Local variants interface will allow users to export flanking sequences around the selected variant. The extracted sequence...
The data for variants loaded from a VCF file can contain sequencing coverage depth (the DP tag in the INFO field). We now allow the automated creation of a quantitative track that stores these DP values. This feature will work...
VCF files used for loading variation data can contain symbolic allele notations, such as <DEL>, <INS>, or <DUP>. These symbolic alleles appear in the ALT field of a VCF record and are used when the actual inserted or deleted sequence...
We have improved the motif search interface, enabling users to search for multiple motifs by entering them as a comma-separated list. Additionally, users can now select DNA motifs from the REBASE database, which contains recognition sites for restriction enzymes. To...
You might like the latest enhancements of the Persephone UI. The users have been able to adjust track feature colors and change the font size. In the new version, we introduced the Dark Mode. Using bright colors against a dark background...
We’re excited to announce the first inclusion of dog genomes in our collection, featuring the German Shepherd, Boxer, and Labrador Retriever. If you’d like to see additional canine breeds represented, we’d love to hear from you. ...
A new genome has been added to our collection of millet genomes: Eleusine coracana v.1. Finger millet chromosomes 6A and 7A are aligned to pearl millet chromosome 7. The colored ribbons are based on clustered ortholog links. We were surprised to find...
Please welcome new members of our genome collection: Mouse mm39 (Mus musculus, GRCm39) and Gorilla Kamilah_GGO_v0 (Gorilla gorilla). As usual, we identified orthologous gene pairs between these genomes and the human genomes. This has allowed us to produce synteny matrices...