We have downloaded the assembly and annotation of the reference tomato genome version SL4.0, as well as other tomato varieties such as M82 or FLA.8924. The data is coming from http://solgenomics.net. For now, the new map set has the following tracks: ...
Please check the "About Persephone" page: we updated the text by adding a Dataflow section that describes the typical data types and file formats of the source data understood by our loader program PersephoneShell. We thought that it would serve...
We expanded our repository of public genomes by adding one more genome assembly with annotation: corn cultivar Mo17. Aligning it with AGPv4 B73 maps reveals structural variations between the two cultivars.Please follow this link to see this example in the...
The genome sequences and gene annotation of Solanum lycopersicum (tomato SL3.0) have been loaded from Phytozome v.13. We added NCBI's Gnomon gene models too, for comparison. Sequences of a close relative, potato, can be aligned to the tomato chromosomes by linking the...
We have added a new track to the vertical view of maps - a GC-content track, previously shown in the horizontal view only. The most useful utility of this track is the ability to show poly-N spacers, drawn in blue....
ClinVar is a freely accessible, public archive of reports of the relationships among human variations and phenotypes, with supporting evidence. We have created a track with 441,959 markers corresponding to the ClinVar entries. Each marker has multiple qualifiers including the ones that...
If you have worked with the wheat or human genome, you are probably familiar with a typical long wait for getting BLAST search results for these quite large genomes. To save you some time, we have introduced a feature in Persephone Windows...
We have replaced an older Lucene search engine with a more advanced Apache Solr. We are very pleased with the results of the change: besides much improved response times for fetching the results, the indexing process is now 5 times faster. The search...
We have mapped ~ 700K marker sequences from Illumina's OmniExpress 24 v.1.3 onto the latest version of human genome GRCh38 and created a track (highlighted below). The marker sequences used for mapping are stored with the markers and can be visualized...
We have uploaded the version DM_v4.03 of the potato genome (Solanum tuberosum). Here is the list of tracks: Gene models predicted by GLEAN Public mRNA and EST from NCBI for potato were aligned to the genomic sequences using hisat2. This...