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
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!
Reposted by Franck Dumetz 🦠😻🏳️🌈
I am happy to share a preprint on the marine plankton project I started one year ago (thanks to Julius and Drahomira's help)
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
March 24, 2025 at 3:22 PM
I am happy to share a preprint on the marine plankton project I started one year ago (thanks to Julius and Drahomira's help)
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
I'll say it again, thank your support staff, they are AWSOME!
March 24, 2025 at 3:40 PM
I'll say it again, thank your support staff, they are AWSOME!
Remember when I said I didn't want to do a GO analysis ever again, well I still think that however it is the first time it gave something interesting and something I can talk about in the discussion of my paper!
March 14, 2025 at 7:21 PM
Remember when I said I didn't want to do a GO analysis ever again, well I still think that however it is the first time it gave something interesting and something I can talk about in the discussion of my paper!
I don't wanna do a GO enrichment analysis EVER AGAIN!
March 12, 2025 at 8:39 PM
I don't wanna do a GO enrichment analysis EVER AGAIN!
Today wasn’t a great day. Anybody with some cat pictures or some hydatid cyst to help with my mood? Any other parasite would work
March 10, 2025 at 8:40 PM
Today wasn’t a great day. Anybody with some cat pictures or some hydatid cyst to help with my mood? Any other parasite would work
Don't forget to tell your support staff that you appreciate the hard work they do and that they matter to what we do. Research would be so much harder without them.
March 5, 2025 at 5:30 PM
Don't forget to tell your support staff that you appreciate the hard work they do and that they matter to what we do. Research would be so much harder without them.
Never forget!
March 5, 2025 at 4:06 PM
Never forget!
Version 2 of the splice leader table is available
doi.org/10.6084/m9.f...
This time I published the pdf and excel table for easier manipulation.
A big thank you to @jamesacotton.bsky.social for the info on Trichinella and correcting the on Schistosoma. Keep it coming! #openscience #SpliceLeader
doi.org/10.6084/m9.f...
This time I published the pdf and excel table for easier manipulation.
A big thank you to @jamesacotton.bsky.social for the info on Trichinella and correcting the on Schistosoma. Keep it coming! #openscience #SpliceLeader
SL_table_list_v2-030325.xlsx
Version 2This 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.This is table will be updated with new sequences if they are made available. Contact me if you want to add data to this, a new column will be added to give credit the person giving the data. This table was done on my free time and can not be associated to any funding.
doi.org
March 3, 2025 at 2:55 PM
Version 2 of the splice leader table is available
doi.org/10.6084/m9.f...
This time I published the pdf and excel table for easier manipulation.
A big thank you to @jamesacotton.bsky.social for the info on Trichinella and correcting the on Schistosoma. Keep it coming! #openscience #SpliceLeader
doi.org/10.6084/m9.f...
This time I published the pdf and excel table for easier manipulation.
A big thank you to @jamesacotton.bsky.social for the info on Trichinella and correcting the on Schistosoma. Keep it coming! #openscience #SpliceLeader