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...
A new track with the latest annotation by NCBI's Gnomon (Feb.2019) pipeline has been added to Homo sapiens GRCh38 data set. See the bottom track on this picture. The gene models are sometimes quite different from the models in other tracks. Use...
We have loaded the potato genome (DM_v4.03) with multiple annotation tracks showing gene models, mapped markers and repeats. To help assessing the gene prediction quality, we downloaded 300,000 potato EST and mRNA sequences from NCBI and splice-aligned them to the genome....
This was our second year attending the largest Ag-Genomics meeting in the world in San Diego CA. Many thanks to all who stopped by our exhibit as well as those who attended Max Troukhan's talk at the IWGSC workshop (https://pag.confex.com/pag/xxvii/meetingapp.cgi/Paper/36359)...