@OMABrowser

Orthologs among 2000+ complete genomes across all of life. Follow us to stay informed of new releases and features. We welcome feedback and suggestions!

 Zurich/Lausanne/London
omabrowser.org
Joined November 2013
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  • Following47
  • Followers230
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FastOMA is out now in Nature Methods 🎉: nature.com/articles/s41592-0… A new orthology inference algorithm that scales linearly and is highly accurate. FastOMA can process all >2000 eukaryotic UniProt ref proteomes <24 hours 🚀. Try it out at github.com/DessimozLab/fasto…
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Session 24: OMA/OMArk is starting now! To join in the session, jump over to our discord at: discord.gg/gF73fCF4 Or you can join in on the YouTube stream at: youtube.com/@thebiodiversity… @SinaMajidian @OMABrowser

Discord - Group Chat That’s All Fun & Games

Discord is great for playing games and chilling with friends, or even building a worldwide community. Customize your own space to talk, play, and hang out.

discord.com
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Our OMArk paper is finally out at @NatureBiotech! I am excited to share the final results of our work with @Gloveface @cdessimoz @VictorRossier @DessimozLab. OMArk is a one-stop shop for eukaryotic genome annotation assessment. Link : nature.com/articles/s41587-0… (🧵)

Quality assessment of gene repertoire annotations with OMArk

Nature Biotechnology - A new tool checks the quality of gene annotations in genome sequences.

nature.com
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Quality assessment of gene repertoire annotations with OMArk go.nature.com/4bH5OaF
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FastOMA algorithm in a nutshell! More details in the preprint biorxiv.org/content/10.1101/…

Orthology inference at scale with FastOMA

The surge in genome data, with ongoing efforts aiming to sequence 1.5M eukaryotes in a decade, could revolutionise genomics, revealing the origins, evolution, and genetic innovations of biological...

biorxiv.org
Dessimoz Lab@DessimozLab1 Feb 2024
Replying to @DessimozLab
After trying many different ideas over years, we're happy to have found a scalable solution without sacrificing accuracy. It works by clustering homologs using k-mer based placement, followed by a highly parallelised taxonomy-guided processing of families using subsampling.(3/4)
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OMA Database retweeted
Dessimoz Lab@DessimozLab1 Feb 2024
Excited to release FastOMA, a rewrite of OMA orthology algorithm that scales linearly, while maintaining OMA’s high accuracy. FastOMA can process all >2000 eukaryotic UniProt ref proteomes within 24 hours. Try it out github.com/DessimozLab/FastO… Preprint: biorxiv.org/content/10.1101/… (1/4)
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Want to use the OMA browser to get orthologs, but your species of interest isn’t there? Request to add it for the next release! (Deadline: 7 Feb 2024) Search available genomes in OMA: tinyurl.com/3b4tswkx Suggest a genome: tinyurl.com/ypea8x2d
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🚀 Exciting news from the OMA team! Our 2024 update brings a host of improvements to our orthology knowledgebase. Stay tuned for a series of highlights! #OMAUpdate2024 #Genomics #Bioinformatics academic.oup.com/nar/advance…
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📈 Assess the quality of your proteomes with OMArk, a new tool that estimates completeness, detects fragments, and identifies contamination. omark.omabrowser.org #Proteomics #QualityAssessment #OMAUpdate2024
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💡 That's a wrap on our #OMAUpdate2024 highlights! Dive into the new OMA browser to explore these features and more. Your feedback is always welcome! #Genomics #Bioinformatics omabrowser.org
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🔎 Find what you need faster with our improved search engine. Contextual understanding for more accurate results in your genomics research. #SearchOptimization #OMAUpdate2024
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Replying to @SinaMajidian @OMABrowser @ISBSIB @cdessimoz @DessimozLab @Why_NeverS
For those who missed it... youtube.com/watch?v=6mFTWgOv…
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A 2-hour hands-on workshop to learn about @OMABrowser and OMArk for proteome quality assessment! registration link:bga23.org/sessions/#planned-… preprint: biorxiv.org/content/10.1101/… tool: github.com/DessimozLab/OMArk
The Biodiversity Genomics Academy@TheBGAcademy11 Aug 2023
Replying to @TheBGAcademy @rmwaterhouse @nuala_oleary @giulio_formenti @CibeleCaio @MahUliano @Why_NeverS @SinaMajidian @CorreardSolenne @Toby_Baril_Bio @EBPgenome @SangerVGP @genomeark @erga_biodiv @BioGenEurope @CatBiogenoma @DAISEA_AfricaBP
New topics include: ✅ Starting a comparative genome study from CNGBdb: datasets, analysis platform, and spatial transcriptomics database ✅ Genome profiling using Genomescope ✅ OMA and OMArk for homology exploration and gene annotation quality control
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OMA Database retweeted
SIB@ISBSIB8 May 2023
Bringing meaning to biological #data: #knowledgegraphs meet #ChatGPT → our new Knowledge Representation team investigate how #NLP supports #lifescience researchers in exploring datasets they are not familiar with. Read more: tinyurl.com/2p8x8z9f
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