An 18-min Video Presentation On Web Persephone
Max Troukhan, Ph.D, is going to present this video talk at BiATA conference. It gives a quick overview of the major features of Persephone for the Web. https://www.youtube.com/watch?v=ie7LFV1Hu_Q ...
Web Version
SARS-CoV-2 Delta (The Virus from India) Loaded
The recent COVID-19 pandemic profile is changing, and now it is mostly dominated by the coronavirus strain called delta (B.1.617.2) that caused massive problems in India and other countries. We loaded its genome with the gene annotation to our web...
A Major Version Upgrade: Upload Genomes With Annotation
The new version of Web Persephone enables users to upload their genomes in a form of FASTA files. The file with sequences can contain one or more entries. The new assembly will be added to the map set tree alongside...
Added two more Medicago sativa genomes
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....
Multi-trace Quantitative Tracks
13 April 2021
in Web Version
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...
Introducing Feature Comparison Page
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...
21 Reference Assemblies Added To The Rice Pan-Genome Collection
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...
Multiple Soybean Genomes Loaded
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...
26 Zea mays NAM lines in the pan-genome browser
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...
Does COVID-19 suppress the immune response?
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...