Axel Janssen
@axeljanssen.bsky.social
Postdoctoral researcher in the Department of Fundamental Microbiology, at the University of Lausanne. Opinions my own.
Reposted by Axel Janssen
Of course, we ( @axeljanssen.bsky.social) setup a genome browser with a track with sgRNA target sites for easy target validation and gene hunting
August 7, 2025 at 4:33 PM
Of course, we ( @axeljanssen.bsky.social) setup a genome browser with a track with sgRNA target sites for easy target validation and gene hunting
Don't miss out on our work on Haemophilus influenzae fitness profiling using CRISPRi-Seq!
Visit our HaemoBrowse genome browser as well: haemobrowse.veeninglab.com.
Visit our HaemoBrowse genome browser as well: haemobrowse.veeninglab.com.
August 7, 2025 at 1:50 PM
Don't miss out on our work on Haemophilus influenzae fitness profiling using CRISPRi-Seq!
Visit our HaemoBrowse genome browser as well: haemobrowse.veeninglab.com.
Visit our HaemoBrowse genome browser as well: haemobrowse.veeninglab.com.
Reposted by Axel Janssen
👏 And another one from @jwveening.bsky.social @dmf-unil.bsky.social @unil.bsky.social @mvmazzuoli.bsky.social @axeljanssen.bsky.social
Published in @natcomms.nature.com 👇
Published in @natcomms.nature.com 👇
OUT NOW! 👇🏼We built a make-or-break Prime editing tool—have a read to discover how it’s changing the way we do genomic engineering.
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
April 24, 2025 at 7:19 AM
👏 And another one from @jwveening.bsky.social @dmf-unil.bsky.social @unil.bsky.social @mvmazzuoli.bsky.social @axeljanssen.bsky.social
Published in @natcomms.nature.com 👇
Published in @natcomms.nature.com 👇
Reposted by Axel Janssen
OUT NOW! 👇🏼We built a make-or-break Prime editing tool—have a read to discover how it’s changing the way we do genomic engineering.
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
April 23, 2025 at 3:39 PM
OUT NOW! 👇🏼We built a make-or-break Prime editing tool—have a read to discover how it’s changing the way we do genomic engineering.
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
www.nature.com/articles/s41...
@JWVeening @AxelJans & all others authors! 👏🏻
Reposted by Axel Janssen
We would love feedback on a new NCBI-BLAST service we are launching today: sky-blast.com
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
March 11, 2025 at 11:50 PM
We would love feedback on a new NCBI-BLAST service we are launching today: sky-blast.com
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
Reposted by Axel Janssen
"...opvallend is dat slechts 31 procent van de respondenten die ervaring heeft met het beoordelen van subsidieaanvragen dit proces eerlijk vindt. “Zelfs succesvolle aanvragers en commissieveteranen vinden het beoordelingsproces voor subsidieaanvragen niet eerlijk”, concluderen de auteurs." 1/
Beursafhankelijkheid wetenschappers beknot academische vrijheid - ScienceGuide
Het huidige beoordelingsproces van subsidieaanvragen is oneerlijk, vindt de helft van de Nederlandse wetenschappers.
www.scienceguide.nl
December 16, 2024 at 9:58 AM
"...opvallend is dat slechts 31 procent van de respondenten die ervaring heeft met het beoordelen van subsidieaanvragen dit proces eerlijk vindt. “Zelfs succesvolle aanvragers en commissieveteranen vinden het beoordelingsproces voor subsidieaanvragen niet eerlijk”, concluderen de auteurs." 1/
Reposted by Axel Janssen
December 13, 2024 at 5:50 PM
Reposted by Axel Janssen
Checkout this preprint from Bevika Sewgoolam! She used CRISPRi-seq to determine antibiotic-stress signatures, specifically of pneumococci treated with fluoroquinolone antibiotics. It's a really powerful approach revealing a surprising antibiotic combination therapy. www.biorxiv.org/content/10.1...
Genome-wide antibiotic-CRISPRi profiling identifies LiaR activation as a strategy to resensitize fluoroquinolone-resistant Streptococcus pneumoniae
Streptococcus pneumoniae is a human pathogen that has become increasingly resistant to the synthetic fluoroquinolone antibiotics that target bacterial topoisomerases. To identify pathways that are ess...
www.biorxiv.org
October 31, 2024 at 8:46 AM
Checkout this preprint from Bevika Sewgoolam! She used CRISPRi-seq to determine antibiotic-stress signatures, specifically of pneumococci treated with fluoroquinolone antibiotics. It's a really powerful approach revealing a surprising antibiotic combination therapy. www.biorxiv.org/content/10.1...
Do you use D39V, TIGR4, EF3030, BHN418, or another pneumococcal strain in your research? Easily browse their genome on PneumoBrowse 2 pneumobrowse2.veeninglab.com!
Now out in shiny PDF in Nucleic Acids Research!
Do you have any feedback? Please let us know!
academic.oup.com/nar/advance-...
Now out in shiny PDF in Nucleic Acids Research!
Do you have any feedback? Please let us know!
academic.oup.com/nar/advance-...
October 25, 2024 at 8:48 AM
Do you use D39V, TIGR4, EF3030, BHN418, or another pneumococcal strain in your research? Easily browse their genome on PneumoBrowse 2 pneumobrowse2.veeninglab.com!
Now out in shiny PDF in Nucleic Acids Research!
Do you have any feedback? Please let us know!
academic.oup.com/nar/advance-...
Now out in shiny PDF in Nucleic Acids Research!
Do you have any feedback? Please let us know!
academic.oup.com/nar/advance-...
Reposted by Axel Janssen
The Martin lab has an open postdoc position at the interface of #cytoskeleton and #condensate biology, in a fantastic research community!
If interested, do not hesitate to contact us: mocel.unige.ch/research-gro...
Please RT!
If interested, do not hesitate to contact us: mocel.unige.ch/research-gro...
Please RT!
October 23, 2024 at 4:24 PM
The Martin lab has an open postdoc position at the interface of #cytoskeleton and #condensate biology, in a fantastic research community!
If interested, do not hesitate to contact us: mocel.unige.ch/research-gro...
Please RT!
If interested, do not hesitate to contact us: mocel.unige.ch/research-gro...
Please RT!
Reposted by Axel Janssen
Reposted by Axel Janssen
Bij het aanvragen van een Vidi-subsidie verlangt NWO dat universiteiten toezeggen de aanvrager een vaste positie te zullen geven. Dat hindert onderzoekers met een tijdelijk contract, want veel universiteiten willen zo’n toezegging alleen doen bij medewerkers in vaste dienst, stelt Mehrdad Alipour.
‘Geen vast contract, geen kans: verborgen ongelijkheid in NWO-beleid voor Vidi-subsidies’ - ScienceGuide
Universiteiten willen alleen vast personeel een inbeddingsverklaring geven bij Vidi-aanvragen, schrijft Mehrdad Alipour.
www.scienceguide.nl
September 12, 2024 at 1:43 PM
Bij het aanvragen van een Vidi-subsidie verlangt NWO dat universiteiten toezeggen de aanvrager een vaste positie te zullen geven. Dat hindert onderzoekers met een tijdelijk contract, want veel universiteiten willen zo’n toezegging alleen doen bij medewerkers in vaste dienst, stelt Mehrdad Alipour.
Reposted by Axel Janssen
Our bacterial community breeding experiment is now published! doi.org/10.1038/s414... Huge congratulations to Flora, Björn and all co-authors on making a very ambitious project a reality! In short: you can select communities to improve pollutant degradation (with caveats)
Artificial selection improves pollutant degradation by bacterial communities - Nature Communications
Artificial selection is a promising way to improve microbial community functions. Here, Arias-Sánchez et al. evaluate a method inspired by genetic algorithms to select small bacterial communities of k...
doi.org
September 12, 2024 at 1:23 PM
Our bacterial community breeding experiment is now published! doi.org/10.1038/s414... Huge congratulations to Flora, Björn and all co-authors on making a very ambitious project a reality! In short: you can select communities to improve pollutant degradation (with caveats)
Reposted by Axel Janssen
Genome-wide dual CRISPRi-seq! Knocking down every gene with every other gene in the pneumococcus, identifying > 4000 genetic interactions (GIs), most of which have never been reported. www.biorxiv.org/content/10.1...
Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
August 17, 2024 at 5:04 AM
Genome-wide dual CRISPRi-seq! Knocking down every gene with every other gene in the pneumococcus, identifying > 4000 genetic interactions (GIs), most of which have never been reported. www.biorxiv.org/content/10.1...
Reposted by Axel Janssen
Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle https://www.biorxiv.org/content/10.1101/2024.08.14.607739v1
Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle https://www.biorxiv.org/content/10.1101/2024.08.14.607739v1
A major goal in biology is to uncover the relationship between genotype and phenotype. However, iden
www.biorxiv.org
August 15, 2024 at 5:16 AM
Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle https://www.biorxiv.org/content/10.1101/2024.08.14.607739v1
Reposted by Axel Janssen
It was already a very useful resource, now it is an absolutely fabulous resource!
For each gene, we also provide direct links to other databases, such as PneumoWiki, the NCBI, UniProt, PaperBLAST, AlphaFold, and Foldseek, to allow further discovery of biological functions by end-users!
August 9, 2024 at 3:21 PM
It was already a very useful resource, now it is an absolutely fabulous resource!
Reposted by Axel Janssen
We are looking for a Network Manager for TARGet (Transdisciplinary Antimicrobial Resistance Genomics network).
Apply by scanning the QR code or via www.birmingham.ac.uk/jobs
Apply by scanning the QR code or via www.birmingham.ac.uk/jobs
August 9, 2024 at 11:28 AM
We are looking for a Network Manager for TARGet (Transdisciplinary Antimicrobial Resistance Genomics network).
Apply by scanning the QR code or via www.birmingham.ac.uk/jobs
Apply by scanning the QR code or via www.birmingham.ac.uk/jobs
Did you like PneumoBrowse, our pneumococcal genome browser?
We just released the newest version: PneumoBrowse 2!
Try it out on pneumobrowse2.veeninglab.com, and read the preprint! www.biorxiv.org/content/10.1...
We just released the newest version: PneumoBrowse 2!
Try it out on pneumobrowse2.veeninglab.com, and read the preprint! www.biorxiv.org/content/10.1...
PneumoBrowse
Genome browser for Streptococcus pneumoniae
pneumobrowse2.veeninglab.com
August 9, 2024 at 2:12 PM
Did you like PneumoBrowse, our pneumococcal genome browser?
We just released the newest version: PneumoBrowse 2!
Try it out on pneumobrowse2.veeninglab.com, and read the preprint! www.biorxiv.org/content/10.1...
We just released the newest version: PneumoBrowse 2!
Try it out on pneumobrowse2.veeninglab.com, and read the preprint! www.biorxiv.org/content/10.1...
Reposted by Axel Janssen
July 12, 2024 at 7:09 PM
Reposted by Axel Janssen
We're looking for an enthusiastic experimentalist PhD student to join our interdisciplinary group interested in the ecology & evolution of microbial communities unil.ch/mitrilab. Apply tinyurl.com/mu5swnk8 before Aug 31! Bonus: Lausanne is a beautiful place to live!
July 11, 2024 at 7:40 AM
We're looking for an enthusiastic experimentalist PhD student to join our interdisciplinary group interested in the ecology & evolution of microbial communities unil.ch/mitrilab. Apply tinyurl.com/mu5swnk8 before Aug 31! Bonus: Lausanne is a beautiful place to live!
🚨New work alarm🚨
Very happy to see this work out, together with Monica, @mvmazzuoli.bsky.social, Anne-Stephanie, Xue, and @jwveening.bsky.social.
We developed make-or-break Prime Editing, through which we can make a wide variety of mutations.
Read more on BioRxiv!
Very happy to see this work out, together with Monica, @mvmazzuoli.bsky.social, Anne-Stephanie, Xue, and @jwveening.bsky.social.
We developed make-or-break Prime Editing, through which we can make a wide variety of mutations.
Read more on BioRxiv!
Make-or-break prime editing for bacterial genome engineering https://www.biorxiv.org/content/10.1101/2024.06.27.601116v1
Make-or-break prime editing for bacterial genome engineering https://www.biorxiv.org/content/10.1101/2024.06.27.601116v1
CRISPR-Cas9 has revolutionized genome engineering by allowing precise introductions of DNA double-st
www.biorxiv.org
July 1, 2024 at 7:28 AM
🚨New work alarm🚨
Very happy to see this work out, together with Monica, @mvmazzuoli.bsky.social, Anne-Stephanie, Xue, and @jwveening.bsky.social.
We developed make-or-break Prime Editing, through which we can make a wide variety of mutations.
Read more on BioRxiv!
Very happy to see this work out, together with Monica, @mvmazzuoli.bsky.social, Anne-Stephanie, Xue, and @jwveening.bsky.social.
We developed make-or-break Prime Editing, through which we can make a wide variety of mutations.
Read more on BioRxiv!
Reposted by Axel Janssen
New preprint from the lab:
Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1...
#microsky
Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1...
#microsky
Microbial interactions affect the tempo and mode of antibiotic resistance evolution
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
June 7, 2024 at 7:31 AM
New preprint from the lab:
Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1...
#microsky
Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1...
#microsky
Reposted by Axel Janssen
Very happy to share our latest preprint DMF UNIL: Jung and Gábor controlled the ring patterns in E. coli colonies generated by a synthetic oscillator with optogenetics. We observed synchronisation, resonance, entrainment, undertone, period doubling and even chaos! Feedback welcome.
April 2, 2024 at 10:18 AM
Very happy to share our latest preprint DMF UNIL: Jung and Gábor controlled the ring patterns in E. coli colonies generated by a synthetic oscillator with optogenetics. We observed synchronisation, resonance, entrainment, undertone, period doubling and even chaos! Feedback welcome.
Reposted by Axel Janssen
Job claxon: 18-month PDRA position in my group on the correlation between gut microbiome composition and psychological status in a unique military cohort: www.jobs.ac.uk/job/DGQ655/r...
Email me for details!
Email me for details!
Research Fellow at University of Birmingham
An opportunity for an academic position as a Research Fellow is available, as advertised on jobs.ac.uk. Apply now and explore other academic job openings.
www.jobs.ac.uk
March 20, 2024 at 6:14 PM
Job claxon: 18-month PDRA position in my group on the correlation between gut microbiome composition and psychological status in a unique military cohort: www.jobs.ac.uk/job/DGQ655/r...
Email me for details!
Email me for details!
Reposted by Axel Janssen
Funded PhD opportunity with me and Dr Tim Overton. This scholarship is open to Black British students & will investigate the links between efflux, energy metabolism & drug resistance. Please get in touch with us if you would like more information! www.birmingham.ac.uk/study/postgr...
February 15, 2024 at 1:23 PM
Funded PhD opportunity with me and Dr Tim Overton. This scholarship is open to Black British students & will investigate the links between efflux, energy metabolism & drug resistance. Please get in touch with us if you would like more information! www.birmingham.ac.uk/study/postgr...