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Axel Künstner

@knstnr.bsky.social
485 followers 781 following 153 posts

Bioinformatician. Statistician. Data squeezer. Omics-addicted with strong focus on #microbiome and #cancer.

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Axel Künstner @knstnr.bsky.social · 14/09/2026
1/8 🦠🍃 New paper in npj Systems Biology and Applications! Chronic otitis media (COM) is a leading cause of preventable hearing loss. We asked: can the natural anti-inflammatory compound 1,8-Cineol reshape the ear microbiome beyond antibiotics? 🧵 www.nature.com/articles/s41...
nature.com
Bacterial and fungal communities and network dynamics in Otitis media patients upon 1,8-Cineol treatment - npj Systems Biology and Applications
npj Systems Biology and Applications - Bacterial and fungal communities and network dynamics in Otitis media patients upon 1,8-Cineol treatment
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Axel Künstner @knstnr.bsky.social · 14/09/2026
🧬 New paper! Within #InstandNGS4P we developed MRD prototypes detecting ctDNA in blood plasma to support diagnosis of pancreatic & ovarian cancer — UMI-based error correction + ultra-deep sequencing. 📄 Open Research Europe: open-research-europe.ec.europa.eu/articles/6-87 #LiquidBiopsy #ctDNA
open-research-europe.ec.europa.eu
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Helmholtz Institute Würzburg @helmholtz-hiri.bsky.social · 24/08/2026
🚨 The #HIRI & the Faculty of Medicine of the @uni-wuerzburg.de invite applications for 2️⃣ JUNIOR PROFESSORSHIPS in: 🔵 RNA-BASED INFECTION RESEARCH 🔵 MICROBIAL RNA BIOLOGY 🔵 RNA-BASED MEDICINE Apply by September 21: www.helmholtz-hiri.de/en/jobs-tale... Find an overview in this thread. 🧵👇 (1/5)
helmholtz-hiri.de
W1 Groups
The Faculty of Medicine of the Julius-Maximilians-University of Würzburgand theHelmholtz Institute for RNA-based Infection Research (HIRI, Würzburg)jointly open a call for
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Axel Künstner @knstnr.bsky.social · 24/08/2026
🧬 New in Blood: we describe FOXF1/FENDRR — a novel molecular subtype of B-cell precursor ALL in adults, found in 20/4857 patients across 3 cohorts. Defined by a previously unknown IGH::FENDRR rearrangement + recurrent KRAS mutations (p.A146V/T/P). 🧵 doi.org/10.1182/bloo...
doi.org
IGH::FENDRR and specific KRAS mutations define a novel B-ALL molecular subtype with poor chemotherapy response
Key PointsFOXF1/FENDRR is a molecular B-ALL subtype in adults defined by IGH::FENDRR, specific KRAS mutations, and FOXF1 overexpression.Patients with FOXF1
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Axel Künstner @knstnr.bsky.social · 14/08/2026
New in Blood @bloodjournals.hematology.org lenalidomide (maintenance tx in myeloma) raises B-ALL risk. We show WHY in a subset of cases IDH2 R140Q clonal hematopoiesis + lenalidomide-driven IKAROS loss cooperate to arrest B-cell dev., seeding a distinct leukemia subtype. 🧵 doi.org/10.1182/bloo...
doi.org
IDH2 clonal hematopoiesis and IKAROS loss cooperate in a B-ALL subtype after lenalidomide therapy for multiple myeloma
Key PointsIDH2 R140Q mutations define a distinct B-ALL subtype that is highly enriched in LenB-ALL.IDH2mt LenB-ALL emerges from IDH2-mutant clonal hematopo
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Axel Künstner @knstnr.bsky.social · 06/07/2026
Preprint: In PD-L1-gain EBV+ DLBCL, T cells get close to tumour cells but rarely touch them; a spatial "decoupling" of proximity and engagement. Fibroblast barriers, metabolic suppression, and T cell exhaustion together block anti-tumour immunity. 🧵1/5 doi.org/10.64898/202...
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Stephen Turner @stephenturner.us · 23/06/2026
Really nice interactive here. Also, tax these killing machines into obscurity. www.nytimes.com/interactive/...
nytimes.com
The Deadly Rise of Giant Trucks and S.U.V.s (Gift Article)
The vehicles on American roads have grown larger — and they are killing thousands more pedestrians, a Times investigation found.
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Axel Künstner @knstnr.bsky.social · 22/06/2026
🧬 EaCoN v0.5.0 "Parallel Universe" is out! A modernized fork of Bastien Job's (@gustaveroussy.fr) copy number analysis package for Affymetrix arrays: → foreach/doParallel fully replaced with furrr/future + purrr/dplyr → R ≥ 4.2.0 compatible → OncoScan, CytoScan, SNP6 github.com/kunstner/EaCoN
github.com
GitHub - kunstner/EaCoN: Easy Copy Number !
Easy Copy Number ! Contribute to kunstner/EaCoN development by creating an account on GitHub.
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Molly Przeworski @mollyprz.bsky.social · 09/06/2026
Now published: journals.plos.org/plosbiology/...
journals.plos.org
What sets the mutation rate of a cell type in an animal species?
Mutation rates per generation are strikingly similar across germlines of animals and across at least one somatic cell type, suggesting a key role for natural selection in shaping mutation rates. This ...
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Axel Künstner @knstnr.bsky.social · 09/06/2026
🦁 New preprint! We developed LION — a manufacturer-independent, 109-gene liquid biopsy panel for pan-cancer ctDNA analysis to support clinical decision-making. 📄 Preprint on medRxiv: www.medrxiv.org/content/10.6... #LiquidBiopsy #ctDNA #CancerGenomics #NGS #Oncology #Bioinformatics
medrxiv.org
A liquid biopsy-centered, pan-cancer, open next generation sequencing panel to support clinical decision-making (LION panel)
Cancer treatment has shifted toward personalized therapy based on molecular profiling, particularly in advanced disease. Existing circulating tumor DNA panels are often broad, generating many non-acti...
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Axel Künstner @knstnr.bsky.social · 29/04/2026
🧠 New paper out in Cancers! We profiled 49 solid tumor brain metastases and found that the adenosine pathway (CD39/CD73) is a frequent immune escape mechanism - often operating independently of PD-L1. #BrainMetastases #CancerGenomics #Oncology #OpenAccess www.mdpi.com/2072-6694/18...
mdpi.com
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Axel Künstner @knstnr.bsky.social · 29/04/2026
🧬 New paper out in @Cancers_MDPI! We show that Regnase-1 is a prognostic biomarker in high-grade soft tissue sarcoma — favorable in UPS, but flipped in adjuvantly irradiated patients. Context matters! 👉 www.mdpi.com/2072-6694/18... #SarcomaResearch #CancerBiomarkers #Immunology
mdpi.com
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Axel Künstner @knstnr.bsky.social · 24/03/2026
Preprint alert! 🚨 www.preprints.org/manuscript/2... High-grade soft tissue sarcomas (STS) lack robust biomarkers—but we may have a new signal. #Sarcoma #Immunology #CancerResearch #TumorMicroenvironment #Biomarkers #Oncology
preprints.org
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Axel Künstner @knstnr.bsky.social · 17/02/2026
Fresh from the press www.nature.com/articles/s41...
nature.com
Exploring the underlying gene expression profiles of differences of sex development phenotypes through transcriptome analysis - Scientific Reports
Scientific Reports - Exploring the underlying gene expression profiles of differences of sex development phenotypes through transcriptome analysis
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Axel Künstner @knstnr.bsky.social · 12/02/2026
Some news from the press www.nature.com/articles/s41...
nature.com
Colonic spatial single-cell proteomics and murine models link mitochondrial dysfunction to dimeric IgA-secreting plasma cell deficiency in Crohn’s disease - Nature Communications
Crohn’s disease is associated with disturbances in the B-cell compartment and secreted antibodies. Here, the authors reveal impaired colonic dimeric IgA responses in patients with Crohn’s disease and ...
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Axel Künstner @knstnr.bsky.social · 17/10/2025
Fresh from the press with some minor contribution from our group onlinelibrary.wiley.com/doi/10.1111/...
onlinelibrary.wiley.com
Immune Training of the Interleukin 6 Gene in Airway Epithelial Cells is Central to Asthma Exacerbations
This study aims to investigate how immune activation influences the epigenetic regulation and expression of the Interleukin-6 (IL-6) gene during asthma exacerbations. By examining molecular mechanism...
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Axel Künstner @knstnr.bsky.social · 30/07/2025
@daanspeth.bsky.social
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Axel Künstner @knstnr.bsky.social · 19/06/2025
📢 Just out: Our study reveals the molecular secrets of primary renal DLBCL (prDLBCL) @bloodadvances.bsky.social #DLBCL #Lymphoma #Genomics 🧵 ashpublications.org/bloodadvance...
ashpublications.org
Molecular profiling of primary renal diffuse large B-cell lymphoma unravels a proclivity for immune-privileged tropism
Key Points. Primary renal DLBCL shows molecular parallels to immune-privileged B-cell lymphomas, with frequent MHC class I/II aberrations.Genomic and trans
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Axel Künstner @knstnr.bsky.social · 19/06/2025
📢 New Research Alert: #Lymphoma #Genomics #RenalMZL @bloodadvances.bsky.social Primary renal marginal zone lymphoma (prMZL) is extremely rare (and often misdiagnosed). We published the largest molecular study to date on this entity. 🔗 ashpublications.org/bloodadvance... Main findings 🧵👇
ashpublications.org
Molecular profiling of primary renal Marginal Zone Lymphoma reveals overlapping features with extranodal Marginal Zone Lymphoma
Axel Künstner, Vera von Kopylow, Philipp Lohneis, Matthias Kümmel, Hanno M. Witte, Dr, Veronica Bernard, Dr, Stephanie Stölting, Kathrin Kusch, Sivahari Pr
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Axel Künstner @knstnr.bsky.social · 28/05/2025
PICRUSt2 received an updated database academic.oup.com/bioinformati...
academic.oup.com
PICRUSt2-SC: an update to the reference database used for functional prediction within PICRUSt2
AbstractSummary. PICRUSt2 is a bioinformatic tool that predicts microbial functions in amplicon sequencing data using a database of annotated reference gen
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Axel Künstner @knstnr.bsky.social · 24/04/2025
Another one this week with contribution of our working group elifesciences.org/articles/98970 @uniluebeck.bsky.social
elifesciences.org
Diet modulates the therapeutic effects of dimethyl fumarate mediated by the immunometabolic neutrophil receptor HCAR
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Axel Künstner @knstnr.bsky.social · 22/04/2025
Fresh from the press: www.embopress.org/doi/full/10.... #microbiome
embopress.org
Metabolic modelling reveals increased autonomy and antagonism in type 2 diabetic gut microbiota | Molecular Systems Biology
imageimageThe gut microbiome supports health through balanced metabolic exchanges, but in type 2 diabetes rising blood glucose shifts interactions from cooperation to competition, altering cross-feedi...
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Axel Künstner @knstnr.bsky.social · 07/04/2025
Today's #Microbiome digest microbiomedigest.com/2025/04/06/a... @elisabethbik.bsky.social #microbiomesky 🦠
microbiomedigest.com
April 08, 2025
General microbiome Conserved genetic basis for microbial colonization of the gut – Liu et al. – Cell Human skin microbiome Confounders of the skin microbiome and wound healing in burn p…
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Reposted by Axel Künstner
We Are RLadies+ @weare.rladies.org · 03/04/2025
New to data science with #RStats or need a refresher? I always recommend R for Data Science (r4ds.hadley.nz) – a free online book by @hadley.nz that takes you from importing data to statistical modeling in a gentle, beginner-friendly way. #datascience #rladies #r4ds
r4ds.hadley.nz
R for Data Science (2e)
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Axel Künstner @knstnr.bsky.social · 26/03/2025
Schaut sich niemand die Bildunterschriften noch mal an? @tagesschau.bsky.social
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Saez-Rodriguez Group @saezlab.bsky.social · 17/03/2025
6 days left to apply to the Post-doc opening in our lab @ebi.embl.org to develop&apply #bioinformatics & #machine-learning methods to study intra-/extra cellular networks to extract disease mechanisms from #single-cell and #spatial multiomic data: embl.wd103.myworkdayjobs.com/EMBL/job/Hin...
embl.wd103.myworkdayjobs.com
Postdoctoral fellow - Saez-Rodriguez Group
Your group Saez-Rodriguez Research Group Your supervisor Julio Saez-Rodriguez Your role As a postdoctoral fellow in the Saez Rodriguez group, you will develop and apply computational methods and tools...
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Sarah-Jane Dawson @sj-dawson.bsky.social · 18/03/2025
Are you a bioinformatician looking for an exciting opportunity in Melbourne? Is cancer genomics your passion? Apply now! www.nature.com/naturecareer...
nature.com
Post-Doctoral Researcher - Parkville, Melbourne (AU) job with Peter MacCallum Cancer Centre – Parkville | 12837536
Exciting opportunity to join a research program led by Sarah-Jane Dawson at the Peter MacCallum Cancer Centre (www.thedawsonlab.com).
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Axel Künstner @knstnr.bsky.social · 25/02/2025
🧬 Just published in Annals of Hematology! Thanks to the H. Witte, N. Gebauer, T. Hahn and others for pushing this study forward. link.springer.com/article/10.1... #HodgkinLymphoma #CancerGenomics #HematologyResearch #LymphomaGenetics #PrecisionOncology
link.springer.com
The mutational landscape and its longitudinal dynamics in relapsed and refractory classic Hodgkin lymphoma - Annals of Hematology
In classic Hodgkin-lymphoma (cHL), only a few cases recur, and only a limited fraction of patients is primary-refractory to standard-polychemotherapy. Underlying genomic features of unfavorable clinic...
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Linnea Smeds @linneasmeds.bsky.social · 20/02/2025
I don't know how many Swedish speaking contacts I reach here, but if anyone is interested in wolfs and conservation genomics, I'll give a popular science evening lecture about it next Thursday! That is European evening time. In Swedish..🇸🇪 www.studieframjandet.se/uppsala-lan/...
studieframjandet.se
Linnéa Smeds: Djupdykning i vargens genetik
Forskaren Linnéa Smeds berättar om vargstammens historia, genetiska utmaningar och sin forskning om inavel och skadliga mutationer. Föreläsningen lyfter ho
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Nature Reviews Cancer @natrevcancer.nature.com · 15/02/2025
Beyond prostate cancer: Androgen receptor signaling plays a key role in multiple malignancies. Dotto & collegues explore AR’s context-dependent functions in cancer cells & the TME, and highlight AR-targeting cancer trials. 📖 👇
go.nature.com
Androgen receptor signalling in non-prostatic malignancies: challenges and opportunities - Nature Reviews Cancer
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EMBL-EBI @ebi.embl.org · 17/02/2025
📢 We’re looking for a new Team Leader! @enasequence.bsky.social is recruiting a Team Leader to shape the strategy and direction for the ENA and Biosamples open data resources. Interested?👇
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Wolfgang Huber @wkhuber.bsky.social · 14/02/2025
Do you love software engineering for exciting biological applications, open science,open source, R, Bioconductor, modern web, cloud& ML technologies? We're looking for a software engineer to work on R/Bioconductor tools for biological data science and AI embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Picture of the conference centre on the EMBL campus in Heidelberg
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Svetlana Ugarcina Perovic @svetlanaup.bsky.social · 12/02/2025
I joined the Microbiome Digest team in 2018 (thanks to @elisabethbik.bsky.social) and what a journey it's been! Learned so much about microbiome science and connected with amazing researchers along the way. Looking to contribute? Come join our community!
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Dr Liz O’Riordan @lizoriordan.bsky.social · 30/01/2025
My new book ‘The Cancer Roadmap’ was launched today It’s for anyone affected by cancer It tells you what is it, what causes it, how it’s treated, who to trust, how to understand risk + spot red flags on social media when it comes to alternative cures. Get yours here lnk.to/TheCancerRoa...
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Axel Künstner @knstnr.bsky.social · 27/01/2025
#NeverAgain #NeverAgainNeverForget #NeverAgainIsNow
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Axel Künstner @knstnr.bsky.social · 17/01/2025
R.I.P. David Lynch
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Nature Portfolio @natureportfolio.nature.com · 15/01/2025
A paper in Nature presents an AI model that can translate speech and text, including direct speech-to-speech translations, for up to 101 languages. The model, named SEAMLESSM4T, fills gaps in language coverage and outperforms existing systems. 🧪
go.nature.com
Joint speech and text machine translation for up to 100 languages - Nature
SEAMLESSM4T is a single machine translation tool that supports speech-to-speech translation, speech-to-text translation, text-to-speech translation, text-to-text translation and automatic speech recognition between up to 100 languages.
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Bjo:rn Schro:der @mucubacter.bsky.social · 09/01/2025
Final call for our #postdoc recruitment on #gut #microbiome, deadline in a week! Please share!🦋 #MicroSky #AcademicSky #GISky #PhDSky
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Love Dalén @lovedalen.bsky.social · 07/01/2025
At Stockholm University, we are now starting a 2-year Master’s programme in Evolutionary Genomics! Topics include population genetics, phylogenetics, molecular & genome evolution, DNA sequencing, bioinformatics, and palaeogenetics. Please spread the word! www.su.se/english/sear...
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Axel Künstner @knstnr.bsky.social · 17/12/2024
The Finish publication forum downgrades almost all MDPI and Frontiers Journals to 0 from the beginning of 2025. These Journals are not considered as properly peer reviewed trustworthy scientific journals. julkaisufoorumi.fi/en/news/chan...
julkaisufoorumi.fi
Changes to the classification
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EMBL Events @events.embl.org · 13/12/2024
Hi Bluesky community! 👋 Are you looking forward to 2025 as much as we are? 👀 We just updated our 2025 Annual Poster to include even more events for you to join, so go and have a look! ➡️ s.embl.org/poster-bl #EMBLEvents #molecularbiology #lifesciencetraining
The 2025 EMBL Annual Poster, listing all of the courses and conferences taking place in 2025 at EMBL
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Samuel Lampa @smllmp.bsky.social · 10/12/2024
🧬 Are you a #bioinformatician with some Swedish skills & interest in #microbiology looking for a job in #genomics ? 🦠 Come work with Sofia, Lili, me & co at Clinical #Microbiology at Karolinska Uni Hospital in Stockholm! Flexible role and great people! regionstockholm.varbi.com/what:job/job...
regionstockholm.varbi.com
Bioinformatiker till Klinisk Mikrobiologi
Vill du vara med och utveckla framtidens bioinformatiska verktyg för genomisk mikrobiologisk diagnostik? Har du erfarenhet av bioinformatik, programmering och ett intresse för forskning och samarbet
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Axel Künstner @knstnr.bsky.social · 10/12/2024
Today's #Microbiome digest microbiomedigest.com/2024/12/09/d... @elisabethbik.bsky.social #MicrobiomeSky 🦠
microbiomedigest.com
December 10, 2024
General microbiome [COMMENT]The role of pharmacomicrobiomics in HIV prevention, treatment, and women’s health – Swanson, Basting & Klatt Early life Characterization of the Gut and Skin Mi…
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Daniel Lipka @dblipka.bsky.social · 08/12/2024
Looking for a #postdoc in #hematology in combination with #epigenomics, #metabolism and biochemistry? 👉Have a look at this opportunity in my lab. www.dkfz.de/en/postdoc-p... #HemeSky
dkfz.de
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Rob Schneider @robertife.bsky.social · 08/12/2024
Please RS/RT. #GordonConference on "Histone and DNA Modifications" #epigenetics #chromatin 20-25. July 2025. Il Ciocco, Italy. Great speaker lineup. ➡️Register now www.grc.org/histone-and-...
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Harald Ringbauer @hringbauer.bsky.social · 03/12/2024
PhD opportunity in computational population genetics at @MPI_EVA_Leipzig: Join our fully funded project to develop IBD-segment tools, connecting high-quality genomes from 500 Black Death victims to modern Europeans. 🌍💻🧬 Please spread the word! 📢🙌 #aDNA #PopGen www.eva.mpg.de/de/karriere/...
Sketch of IBD segments linking Medieval genomes from the Black Death (1350 CE) to modern Europeans. Logo of ERC-funded research.
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Axel Künstner @knstnr.bsky.social · 27/11/2024
#Bioinformatics in clinical practice from the Nordics. Highly recommended to read! www.biorxiv.org/content/10.1...
biorxiv.org
Recommendations for Bioinformatics in Clinical Practice
Next Generation Sequencing (NGS) is increasingly used in clinical diagnostics, largely driven by the success and robustness of Whole Genome Sequencing (WGS). Whereas updated guidelines exist for how t...
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Sinead English @englishse.bsky.social · 25/11/2024
4-year funded PhD: Urban green space as refuge for people and disease vectors under climate change: a double-edged sword Very interdisciplinary (topic, approach, team): vector ecology, human behaviour; mapping and modelling! www.findaphd.com/phds/project... Application deadline: 6 Jan 2025 (1/2)
Scene of lake in an urban context with sunset behind
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Svetlana Ugarcina Perovic @svetlanaup.bsky.social · 22/11/2024
Current members: Juan Pablo Cardenas @knstnr.bsky.social @dna-heligrace.bsky.social @svetlanaup.bsky.social @elisabethbik.bsky.social Feel free to join us. Just DM me.
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Izzy Jayasinghe @ijayas.bsky.social · 21/11/2024
Our friends at EMBL Australia have called for expressions of interest for the position of Scientific Head. It's a fantastic opportunity for senior scientists based in Aus to bring a vision, stakeholders, and resources to a network that has produced such vibrant scientists and discoveries. 🧪
emblaustralia.org
EMBL Australia invites expressions of interest for Scientific Head role | EMBL Australia
Professor James Whisstock is stepping down after eight transformative years as Scientific Head of EMBL Australia. Prof. Whisstock is a structural biologist at Monash Biomedicine Discovery Institute an...
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