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@sho1sakaguchi
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CIEVaD is a lightweight workflow collection for quick and efficient genomic #VariantDetection testing! This open-source solution enhances data generation and variant evaluation, making genomic analysis more accessible. #Genomics 📄 doi.org/10.3390/v16091… EVBC👤: @akifoss
On March 18-20th, @nf_core is organizing it's annual hackathon! This year, the RKI is the local event site for Berlin, Germany🇩🇪, if you'd like to attend in person. Still multiple spots open and available, first come, first served. Register via @SeqeraLabs until March, 8th 🧬💻
Hey SARS-CoV-2 community! We noticed differences between our daily data dump from @GISAID and downloading data for the same time frame via the web interface. E.g the numbers of BA.2.86 differed between the API data dump and web interface search. @GISAID, why is that? Thanks!
🚨 Thx to the continued efforts of so many colleagues, our genomic surveillance has discovered the first SARS-CoV-2 BA.2.86 genome in 🇩🇪 The consensus sequence ID @GISAID is: EPI_ISL_18241632 - already picked up & added to the ongoing community discussion github.com/sars-cov-2-var…
Happy International Women's Day #IWD2023 to all outstanding #WomenInScience out there! Check out our highlight paper about the female experts in virology and #virusbioinformatics in the EVBC: doi.org/10.3390/v14071… #rolemodels #womeninSTEM
Interested in phylogenomics and public health with a PhD in a related field? Apply until Jan 31st to join my new group at the Robert Koch Institute: interamt.de/koop/app/stell… In English: interamt.de/koop/app/stell…
❕job alert❕ We're looking for a team leader for the #bioinformatics core facility @rki_de! Join us in the unit "Bioinformatics & Systems Biology" and coordinate central bioinformatics services around microbial genomics and sequencing in healthcare! rki.de/DE/Content/Ser…
Through this medium-scale surveillance system, we cover the distribution of VOCs fairly accurately, even though we only capture a small portion of what was sequenced nationwide during this period (Dec '20-'21). Huge thx to all colleagues @rki_de & external partners!
1/ The Integrated Molecular Surveillance of #SARSCoV2 is being established at #RKI. Selected laboratories from all over 🇩🇪 regularly send in samples, which are then examined, sequenced, bioinformatically analyzed, & evaluated here. Results in @CIDJournal ➡️doi.org/10.1093/cid/ci…
Very glad to be attending the #viroid 2022 meeting - so many exciting talks and certainly so much to learn and discover!
Now it's the turn of @akifoss talking about her extensive charactherization of a rodent #deltavirus that infects without a helper hepadnavirus. An excellent job that significantly contributes to the biological characterization of the #ribozyviria realm 👏
#SARSCoV2 #surveillance to inform public health policies incl #vaccination strategies and enable a proactive approach to controlling #COVID19 spread as the virus evolves. [@martinhoelzer @akifoss A. Radonić S. Calvignac-Spencer @c_drosten M. von Kleist] doi.org/10.1093/cid/ci…
We are really proud to present our commentary in the SI "Women in Virology" in @VirusesMDPI which is showcasing the work of the EVBC and more importantly, highlighting the achievements of some outstanding women experts in virology and viral bioinformatics doi.org/10.3390/v14071…
Current phylogenetic tree of all de-duplicated Delta-Omicron GKA recombinants from GISAID. nextstrain.org/community/DC-D… Most recent sample was collected on 28 Feb. Really low circulation in Denmark, France, Germany, and the Netherlands.
We identified one 🇩🇪 SARS-CoV-2 genome that clusters w/ recent 🇫🇷 AY.4/BA.1 recombinants (99.7% nt ident, discussed at github.com/cov-lineages/p…). The seq marked in purple is the 🇩🇪 one we uploaded (GISAID: EPI_ISL_10910370). The tree just shows our internal seqID.
Is there really a plant #flavivirus? - Medium thread. Flaviviruses are enveloped RNA viruses that infect a diverse range of animals, but do they also infect plants?
Positions @rki_de bioinformatics unit! We search a PostDoc for microbial pangenomics, working w/ long reads & genome graphs. And we're looking for candidates supporting our genomic SARS-CoV-2 surveillance (pipeline dev, data flow, automation). Interested? Please get in touch!
#Viromics of extant insect orders unveil the #evolution of the #flavi-like #superfamily. #insectviruses Paper co-authored by EVBC members @akifoss and @c_drosten doi.org/10.1093/ve/vea…
🥳 Really glad to see this published: doi.org/10.1093/ve/vea… Thanks to everyone who made this work possible 😊 A tiny step towards understanding RNA flavivirus/tombusvirus evolution and the last step before graduating 🎓
Shame on @nature for normalizing situations of absence of PhD funding: nature.com/articles/d4158…
The deltavirus story continues from @laura_bergner @danjbecker @DanielStreicker et al., now out in PNAS Diversification of mammalian deltaviruses by host shifting pnas.org/content/118/3/…
Conference Report: The International Virus Bioinformatics Meeting 2020 #IVBM2020 Published in our special issue #VirusBioinformatics in @VirusesMDPI mdpi.com/1999-4915/12/1…
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Who to follow
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Shoichi Sakaguchi
@sho1sakaguchi -
Julia Prigann/Kazmierski
@JuliaKaz3 -
Wendy Jo
@Wendy_J0 -
Konstantina Katsarou
@Katsarou_K -
Dr. Jenna Kelly 👩🏻🔬👩🏻💻🦠🧬🇨🇦🇨🇭
@JN_Kelly -
Christine GOFFINET 🇮🇱
@GoffinetLab -
Sandra Triebel
@sandratriebel_ -
Marcos de la Peña
@Marcos_dlP -
William Tasiame
@WilliamTasiame -
Andres Moreira-Soto
@dokanders232 -
Johanna Leyens
@JohannaLeyens
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