We added Medicago sativa (alfalfa) genome assemblies: medsa.CADL_HM342.gnm1.rVNY and medsa.XinJiangDaYe.gnm1.12MR from https://legumeinfo.org. Even with missing gene annotation on the CADL_HM342 sequences, it is possible to align the Medicago maps using the common tag markers, produced from the XinJangDaYe genome....
We added a new feature to the Web version of Persephone. It allows users to merge several quantitative tracks (e.g., RNA-seq coverage) into one. This makes it easier to compare the values. When the tracks are combined, the values are...
We have compiled a table that lists the features of the two versions of Persephone. This will help overview the milestones for the development roadmap. In general, we plan to port the most of the features of the Windows version...
In collaboration with our colleagues from KAUST, we have added 21 reference-quality rice genome assemblies to our web portal and to the demo Windows version. Os GJ-temp: IRGSP-1.0 (Nipponbare)Os GJ-subtrp: CHAO MEOOs GJ-trop1: AzucenaOs GJ-trop2: KETAN NANGKAOs cB: ARC 10497Os...
We have expanded our collection of public data sets by adding several reference genomes of soybean: Glycine max (soybean) and Glycine soja (wild soybean):G. max Wm82.a2.v1G. max Wm82.a4.v1G. max Zhonghuang 13G. max Zhonghuang 13 NCBI version (sequence only)G. max Lee...
We have added the data for 26 Zea mays reference genomes from the pan-genome project "Whole-Genome Assembly of the maize NAM founders" (https://nam-genomes.org/). The source files were downloaded from MaizeGDB.org. To help browsing this pan-genome data set and provide the...
According to the publication in Nature (https://www.nature.com/articles/s41591-020-0820-9), the spike protein of SARS-CoV-2 has a polybasic cleavage site due to an insertion of 12 nucleotides at the region encoding the junction of S1 and S2 subunits. "This allows effective cleavage by furin and other...
The newly added feature that allows instant BLASTN comparison of aligned sequences can be applied to an interactive sequence comparison for multiple accessions of the infamous coronavirus COVID-19. We also added bat RaTG13 and bat-SL-CoVZC45 coronaviruses and an older SARS-CoV to the...
We are introducing a new feature that allows to compare nucleotides of aligned maps with one click. First, open two maps to be compared. The lines that connect common markers or homologous genes will help you locate syntenic regions. Zoom...
We rolled out a new version of Web Persephone with major feature upgrade: the users can upload their own tracks, and we made sure that all possible optimizations necessary to achieve maximum performance are in place. The system should handle...