Monday, January 15, 2018

New OMA Browser Release (Dec 2017) with 2103 species

We have just released the latest update of the OMA Browser. It is the 22th release covering 2103 genomes.

In this release we added 15 new eukaryotes, i.e. three new plants (Picoplanktonic green algaAlpine rock-cress and Chinese cabbage), 5 new fungi species (Aspergillus glaucusCandida albicansMeyerozyma guilliermondiiKomagataella phaffii and Serendipita indica) and a few early branching eukaryotes (Plasmodium yoelii yoeliiTheileria annulataPolysphondylium pallidum (strain ATCC 26659 / Pp 5 / PN500)Leptomonas seymouriSalpingoeca rosetta (strain ATCC 50818 / BSB-021)Creolimax fragrantissimaPhytophthora nicotianae and Phytophthora parasitica). We also added a few bacteria and archaea species to this release and  we updated some of the common model organisms. You can find a detailed list of all the covered species on our website (http://omabrowser.org/oma/release/).

The new release comes also with a few improvements and enhancements such as a scalable, interactive viewer for hierarchical orthologous groups; protein domain annotations and domain-based links between orthologous groups; new functionality to retrieve phylogenetic marker genes for a subset of species of interest; a new synteny dot plot viewer; and an overhaul of the programmatic access (REST API and semantic web). Read about the new features in our latest OMA Browser publication.


Monday, December 4, 2017

OMA Browser not available due to maintenance work

The OMA Browser will be not available from Mon 4.12.17 from 18:00 UTC to Tue 5.12.2017 14:00 UTC due to electrical safety tests. We apologize for any inconveniences that this may cause.

Friday, June 10, 2016

New Release (May 2016) with 2024 genomes

We have just released the latest update of the OMA Browser. It is the 20th release covering 2024 genomes.

In this release we added Sea lamprey, three more Drosophila,  the Water bear, another 9 fungi species, Eragrostis tef, and a few more bacteria and archaea genomes. Again, we updated many of the common model organisms. You can find a detailed list of all the covered species on our website (http://omabrowser.org/cgi-bin/gateway.pl?f=InfoMatrix).

As usual, the data of the previous release is still available for download.


The new release comes also with a few improvements and enhancements: We provide domain visualizations among the orthologs and tables can be searched and filtered.

Wednesday, September 23, 2015

New release (Sep2015) with 1970 species

We have just released the latest update of the OMA Browser. It is the 19th release covering 1970 genomes.

In this release we added two new Primates (Chlorocebus sabaeus and Papio anubis), another fish (Poecilia formosa), 18 insects (of which 11 are from the Drosophila clade), 6 other metazoas (Loa loa, Onchocerca volvulus, Tetranychus urticae, Strigamia maritima,Capitella teleta and Mnemiopsis leidyi) and 7 new plants (Oryza nivara, Oryza punctata, Oryza rufipogon, Prunus persica, Brassica oleracea, Theobroma cacao and Amborella trichopoda). In this release we updated again many common model organisms. You can find a detailed list of all the covered species on our website (http://omabrowser.org/cgi-bin/gateway.pl?f=InfoMatrix).

As usual, the data of the previous release is still available for download.

Thursday, June 18, 2015

Corrupted release - Rollback to Sep2014 release

Dear OMA users,

We are very sorry to inform you that the latest release of the OMA browser ("Mar 2015"), which has been accessible since 5 June 2015, is unfortunately corrupted. Specifically, in species that were updated in that release, many homologous pairs were erroneously left out in the inference step. We are therefore retracting the "Mar 2015" release and are using the previous release from Sep 2014 again.

We are now in the process of preparing a new release but this process will take several weeks.

If you have any question whether your analysis might be affected, feel free to contact us contact@omabrowser.org.

We are very sorry for any inconveniences this might have caused.

Kind regards,
the OMA team

Friday, June 5, 2015

New OMA release with 1850 species

Update: this release contained errors and has been retracted. More details here.

We have just released the latest update of the OMA Browser. It is the 18th release covering 1850 genomes.

In this release we added two new Primates (Chlorocebus sabaeus and Papio anubis), another fish (Poecilia formosa), 6 other animals (Loa loa, Onchocerca volvulus, Melitaea cinxia, Dendroctonus ponderosae, Megaselia scalaris and Drosophila sechellia) and 7 new plants (Oryza nivara, Oryza punctata, Oryza rufipogon, Prunus persica, Brassica oleracea, Theobroma cacao and Amborella trichopoda). In this release we updated again many common model organisms. You can find a detailed list of all the covered species on our website (http://omabrowser.org/cgi-bin/gateway.pl?f=InfoMatrix).

As usual, the data of the previous releases is still available for download.

Wednesday, October 29, 2014

New OMA release with 1706 genomes

We have just released the latest update of the OMA Browser. It is the 17th release covering 1706 genomes.

For this release we redesigned the webpage entirely and added some new functionalities such as the new synteny viewer, the newly predicted homeologs for wheat and the improved help pages.

This release comprises now 1706 species, including 11 new plant genomes (Physcomitrella patens, Oryza brachyantha, Oryza glaberrima, Oryza sativa subsp. indica, Brachypodium distachyon, Aegilops tauschii, Triticum aestivum, Setaria italica,  Solanum tuberosum and Selaginella moellendorffii) and 10 new animals, i.e. the alpaca, the spotted gar, the blind cave fish, the sheep, the red fire ant, the pacific oyster, the filarial nematode worm, the monarch butterfly, Drosophila yakuba and Drosophila mojavensis. In this release we updated again many common model organisms. You can find a detailed list of all the covered species on our website (http://omabrowser.org/cgi-bin/gateway.pl?f=InfoMatrix).

As usual, the data of the previous releases is still available for download.