Franck Dumetz 🦠😻🏳️🌈
@franckdumetz.bsky.social
Research Associate @GenomeScience.bsky.social studying #parasites and #NTDs | #RNAbiology, #RNAstructures, G-quadruplex, splice leader enthusiast | #LGBTinSTEM 🏳️🌈 | 🇪🇺 | 😺lover
Pinned
SL_table_list_v3-030425.xlsx
Version 3This table summarizes all splice leader sequences I, and other contributors, could find in the literature. The doi and PMID of the reference where the sequences were found serves as reference...
doi.org
The Splice Leader table v3 is here: doi.org/10.6084/m9.f...
More nematodes, more flatworms, more cestodes, more dinoflagellates.
What is coming form original research is Crithidia but again, keep it coming and the list will grow and I will learn more and more #openscience
More nematodes, more flatworms, more cestodes, more dinoflagellates.
What is coming form original research is Crithidia but again, keep it coming and the list will grow and I will learn more and more #openscience
I wish everybody had a boss like @DavidSerre. That's it! I'm leaving that here for future reference
December 10, 2025 at 3:32 PM
I wish everybody had a boss like @DavidSerre. That's it! I'm leaving that here for future reference
Who do we have to lobby to be able to submit pod5 files from @nanoporetech.com to SRA? The actual only way is to use guppy-4.2.2 basecalling fast5 files and that makes very little sense and it is very unpractical! #sequencing #ONT #SRA #NCBI #reproducibility #OpenScience
December 10, 2025 at 1:18 AM
Who do we have to lobby to be able to submit pod5 files from @nanoporetech.com to SRA? The actual only way is to use guppy-4.2.2 basecalling fast5 files and that makes very little sense and it is very unpractical! #sequencing #ONT #SRA #NCBI #reproducibility #OpenScience
Reposted by Franck Dumetz 🦠😻🏳️🌈
The best reading of this article: Trump is going to use FDA to restrict medication abortion, but he wants to wait until after the midterms so the Republicans don't experience blowback. But that just makes the midterms more important. www.bloomberg.com/news/article...
FDA Slow Walking a Long-Awaited Abortion Pill Safety Study
The Food and Drug Administration has delayed a promised review of safety data for the abortion drug mifepristone at Commissioner Marty Makary’s request to put it off until after the midterm elections,...
www.bloomberg.com
December 8, 2025 at 11:20 PM
The best reading of this article: Trump is going to use FDA to restrict medication abortion, but he wants to wait until after the midterms so the Republicans don't experience blowback. But that just makes the midterms more important. www.bloomberg.com/news/article...
Reposted by Franck Dumetz 🦠😻🏳️🌈
I am trilled to share my latest publication where we contribute to the knowledge of how ATR kinase, a DNA damage response factor, modulates DNA replication timing during stress in Leishmania major.
Huge thanks to @rmc9z.bsky.social, @LuizTosi and the collaborators for the support and guidance!
Huge thanks to @rmc9z.bsky.social, @LuizTosi and the collaborators for the support and guidance!
ATR, a DNA damage kinase, modulates DNA replication timing in Leishmania major
Author summary A series of protein kinases act at the pinnacle of eukaryotic cells’ DNA damage response, organising and guiding repair. One such kinase is ATR, which recognises single-stranded DNA for...
dx.plos.org
December 8, 2025 at 10:41 AM
I am trilled to share my latest publication where we contribute to the knowledge of how ATR kinase, a DNA damage response factor, modulates DNA replication timing during stress in Leishmania major.
Huge thanks to @rmc9z.bsky.social, @LuizTosi and the collaborators for the support and guidance!
Huge thanks to @rmc9z.bsky.social, @LuizTosi and the collaborators for the support and guidance!
Reposted by Franck Dumetz 🦠😻🏳️🌈
🚨 Scientists detected a recombinant monkeypox virus combining Clade Ib & Clade IIb in a traveler from Asia to the UK.
The virus continues to surprise us — this is what happens when transmission continues unchecked.
Surveillance + data sharing matter more than ever.
virological.org/t/inter-clad...
The virus continues to surprise us — this is what happens when transmission continues unchecked.
Surveillance + data sharing matter more than ever.
virological.org/t/inter-clad...
Inter-Clade Recombinant Mpox Virus Detected in England in a Traveller Recently Returned from Asia
Inter-Clade Recombinant Mpox Virus Detected in England in a Traveller Recently Returned from Asia Authors: Steven T. Pullan1, Isobel Everall1, Rebecca Doherty1, Lucy Crossman1, Emma Wise1, Hassan Ha...
virological.org
December 9, 2025 at 11:16 AM
🚨 Scientists detected a recombinant monkeypox virus combining Clade Ib & Clade IIb in a traveler from Asia to the UK.
The virus continues to surprise us — this is what happens when transmission continues unchecked.
Surveillance + data sharing matter more than ever.
virological.org/t/inter-clad...
The virus continues to surprise us — this is what happens when transmission continues unchecked.
Surveillance + data sharing matter more than ever.
virological.org/t/inter-clad...
The indirect cost crisis is following its journey where ever it is now. No matter the outcome, we should stay thankful to work with talented administrators and IT staff. @genomescience.bsky.social has a fantastic team of IT specialists. They are essential for our day-to-day life here, thanks guys!
December 3, 2025 at 5:09 PM
The indirect cost crisis is following its journey where ever it is now. No matter the outcome, we should stay thankful to work with talented administrators and IT staff. @genomescience.bsky.social has a fantastic team of IT specialists. They are essential for our day-to-day life here, thanks guys!
Reposted by Franck Dumetz 🦠😻🏳️🌈
It's been a tough year for everyone in #science, and the cuts have hit students hard. On this #GivingTuesday please consider a gift to:
The Claire M. Fraser Fund for Graduate Education
Give here: bit.ly/CMFGradEd
The Claire M. Fraser Fund for Graduate Education
Give here: bit.ly/CMFGradEd
December 2, 2025 at 5:27 PM
It's been a tough year for everyone in #science, and the cuts have hit students hard. On this #GivingTuesday please consider a gift to:
The Claire M. Fraser Fund for Graduate Education
Give here: bit.ly/CMFGradEd
The Claire M. Fraser Fund for Graduate Education
Give here: bit.ly/CMFGradEd
I’m not a medical doctor but I have been working on Neglected Tropical Disease and parasitic disease for my entire career and this has been what has been driving me this whole time.
My quote of the day
I will offer those who suffer all my attention, my science and my love. Never will I betray them or risk their wellbeing to satisfy my vanity.
The Oath of Hippocrates (Amelia Arenas translation)
I will offer those who suffer all my attention, my science and my love. Never will I betray them or risk their wellbeing to satisfy my vanity.
The Oath of Hippocrates (Amelia Arenas translation)
November 30, 2025 at 8:43 PM
I’m not a medical doctor but I have been working on Neglected Tropical Disease and parasitic disease for my entire career and this has been what has been driving me this whole time.
Please people please, once your paper is published, go back on SRA and release it publicly!
November 14, 2025 at 12:31 AM
Please people please, once your paper is published, go back on SRA and release it publicly!
Find that collaborator that makes you look at the data in a different way and kiss them (or just say thank you) and spend the rest of the day (and night) revisit everything you have done in a year!
October 27, 2025 at 9:06 PM
Find that collaborator that makes you look at the data in a different way and kiss them (or just say thank you) and spend the rest of the day (and night) revisit everything you have done in a year!
After a great week for me and my student, I decided to capitalize on the luck to use MEGA for a tree and cibersort to deconvolute my data. There is no amount of luck that can make those 2 things happen or I used too much of it for everything good that happened earlier this week #sundayscience #fail
September 28, 2025 at 9:49 PM
After a great week for me and my student, I decided to capitalize on the luck to use MEGA for a tree and cibersort to deconvolute my data. There is no amount of luck that can make those 2 things happen or I used too much of it for everything good that happened earlier this week #sundayscience #fail
Reposted by Franck Dumetz 🦠😻🏳️🌈
Happy to share our latest preprint, where we present a novel high-throughput #single-cell DNA method that resolves genomic heterogeneity in #Leishmania, from #aneuploidy, #CNVs to #drug-resistance mutations.
🧵...
Link here: www.biorxiv.org/content/10.1...
🧵...
Link here: www.biorxiv.org/content/10.1...
September 11, 2025 at 10:15 AM
Happy to share our latest preprint, where we present a novel high-throughput #single-cell DNA method that resolves genomic heterogeneity in #Leishmania, from #aneuploidy, #CNVs to #drug-resistance mutations.
🧵...
Link here: www.biorxiv.org/content/10.1...
🧵...
Link here: www.biorxiv.org/content/10.1...
My very first fully bioinformatic paper! I did everything myself and now I'm off to do a PCR. I'm grateful to David Serre for teaching me. I hope this will bring new insight to the community and people will enjoy reading it. More to come very soon about Trypanosomatid's genome annotation
The UTRs of Leishmania donovani vary in length and are enriched in potential regulatory structures https://www.biorxiv.org/content/10.1101/2025.09.22.677690v1
September 22, 2025 at 1:46 PM
My very first fully bioinformatic paper! I did everything myself and now I'm off to do a PCR. I'm grateful to David Serre for teaching me. I hope this will bring new insight to the community and people will enjoy reading it. More to come very soon about Trypanosomatid's genome annotation
No MPM for me this year, I have way too much on my plate BUT it doesn't I won't be there. Look for my name and see the great job my very talented student Anushka Shome has done in collaboration with the Hovel-Miner lab on T. brucei
September 1, 2025 at 5:57 PM
No MPM for me this year, I have way too much on my plate BUT it doesn't I won't be there. Look for my name and see the great job my very talented student Anushka Shome has done in collaboration with the Hovel-Miner lab on T. brucei
Sonny is helping to download some Toxoplasma gondii sequences to analyse. He is fascinated by the idea, as everybody can see 😻😏🙃
July 17, 2025 at 2:50 AM
Sonny is helping to download some Toxoplasma gondii sequences to analyse. He is fascinated by the idea, as everybody can see 😻😏🙃
Join me at BUGSS on Sat August 9th for a approachable and interactive "lecture" on the theory of Nanopore Sequencing, discuss pros and cons, potential applications, answer your questions, and more. See you there! #ONTsequencing #CitizenScience @genomescience.bsky.social @nanoporetech.com
July 11, 2025 at 9:04 PM
Join me at BUGSS on Sat August 9th for a approachable and interactive "lecture" on the theory of Nanopore Sequencing, discuss pros and cons, potential applications, answer your questions, and more. See you there! #ONTsequencing #CitizenScience @genomescience.bsky.social @nanoporetech.com
Don't give away fantastic news like "remember what I told you didn't work? well it worked and it looks great but I can't find the file where the description is" just 90min before a progress meeting cause now I want to know for in 90min and not next week Friday #teachingmoment #fantasticintern
July 11, 2025 at 4:22 PM
Don't give away fantastic news like "remember what I told you didn't work? well it worked and it looks great but I can't find the file where the description is" just 90min before a progress meeting cause now I want to know for in 90min and not next week Friday #teachingmoment #fantasticintern
Making meaningful bioproject/biosample/SRA entry for the entire community to reuse the data is a tedious process but it is worth it. Thank you to my dear colleague and friend @robincubed.bsky.social you taught me the best practices and keeps on advising me.
June 29, 2025 at 1:40 AM
Making meaningful bioproject/biosample/SRA entry for the entire community to reuse the data is a tedious process but it is worth it. Thank you to my dear colleague and friend @robincubed.bsky.social you taught me the best practices and keeps on advising me.
I'm doing the stupid research security training mandated if you apply or get federal funds. Nothing there is new if you do academic research for the right reasons. I wonder if all people in government atm have done and passed it... No, don't tell me, i know
June 27, 2025 at 2:37 PM
I'm doing the stupid research security training mandated if you apply or get federal funds. Nothing there is new if you do academic research for the right reasons. I wonder if all people in government atm have done and passed it... No, don't tell me, i know
Urgent family business made me fly back to France for some time. I have a summer student starting today and I can only say thank you to all my colleagues that are actually helping to make it work! I don't think I could have make it work without them. #appreciateyourcolleagues
June 2, 2025 at 3:54 PM
Urgent family business made me fly back to France for some time. I have a summer student starting today and I can only say thank you to all my colleagues that are actually helping to make it work! I don't think I could have make it work without them. #appreciateyourcolleagues
@nanoporetech.com the customer service is... abysmal these days
May 28, 2025 at 1:46 PM
@nanoporetech.com the customer service is... abysmal these days
In our liberal echo chamber that we created here posting this article is probably less impacting but I'm doing it anyway. #NTD are/will be on the rise soon, #billions were spent in elimination efforts that are now totally wasted.
Crippling tropical diseases threaten to surge after U.S. funding cuts
Closing of programs that fought neglected diseases imperils drug donation and distribution efforts in 26 countries
www.science.org
May 21, 2025 at 5:35 PM
May 5, 2025 at 5:05 PM
Anybody around has experience with CibersortX? It has become my new nightmare!
April 4, 2025 at 4:39 PM
Anybody around has experience with CibersortX? It has become my new nightmare!