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...
This week's addition is a pair of citrus genomes: C.sinensis (sweet orange) and (pomelo). We uploaded the genomic sequences with annotation tracks to the Desktop and Web versions. As usual, a routine alignment of syntenic chromosomes reveals large structural rearrangements. We...
In addition to an older Wm82.a2.v1, we have now the version Wm82.a4.v1 of the soybean genome. We added the new data set to the Desktop and to the Web versions. Connecting similar genes helps visualizing the changes between the two...
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: ...
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...
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...
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...
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....