Julien Limenitakis
@jlimenitakis.bsky.social
Senior computational immunologist at IMPRINT @imprintlabs.bsky.social
Interested in the effects of diets on B cell repertoires ? Have a look at our new publication: "Diet-derived LPS determines intestinal IgA induction and repertoire characteristics independently of the microbiota" www.cell.com/immunity/ful... This work was done at @unibe.ch. Share if you like it.
Diet-derived LPS determines intestinal IgA induction and repertoire characteristics independently of the microbiota
The microbiota’s impact on immune development is well appreciated. Mooser et al. show
now that dietary LPS promotes intestinal germinal center reactions and IgA production
independently of the microbi...
www.cell.com
June 27, 2025 at 1:02 PM
Interested in the effects of diets on B cell repertoires ? Have a look at our new publication: "Diet-derived LPS determines intestinal IgA induction and repertoire characteristics independently of the microbiota" www.cell.com/immunity/ful... This work was done at @unibe.ch. Share if you like it.
Reposted by Julien Limenitakis
It's an exciting moment for immune repertoire research! At the end of December in Cell Systems, we shared our perspective on recent advances in ML for immune repertoire interpretation: www.sciencedirect.com/science/arti...
January 9, 2025 at 2:55 PM
It's an exciting moment for immune repertoire research! At the end of December in Cell Systems, we shared our perspective on recent advances in ML for immune repertoire interpretation: www.sciencedirect.com/science/arti...
Reposted by Julien Limenitakis
Beyond advancing impactful science, Imprint offers a unique culture as a Focused Research Organization (FRO).
FROs are non-profit, impact-driven moonshot initiatives, combining philanthropic support with startup-like agility to tackle humanity's biggest challenges.
Learn more about Imprint:
FROs are non-profit, impact-driven moonshot initiatives, combining philanthropic support with startup-like agility to tackle humanity's biggest challenges.
Learn more about Imprint:
Imprint FRO
IMPRINT is developing tools to read and analyze immune memory signatures, providing a new approach to identify hidden causes of chronic disease.
www.imprint.org
May 1, 2025 at 1:03 PM
Beyond advancing impactful science, Imprint offers a unique culture as a Focused Research Organization (FRO).
FROs are non-profit, impact-driven moonshot initiatives, combining philanthropic support with startup-like agility to tackle humanity's biggest challenges.
Learn more about Imprint:
FROs are non-profit, impact-driven moonshot initiatives, combining philanthropic support with startup-like agility to tackle humanity's biggest challenges.
Learn more about Imprint:
Reposted by Julien Limenitakis
Looking for a job in immunology or biotech research?
✨IMPRINT is #hiring! ✨
Join us to help revolutionize how we decode the body’s immune memory, uncover the causes of chronic diseases, and drive breakthroughs in autoimmunity and neuropsychiatric research.
#BiotechJobs #Immunology #sciencejobs
✨IMPRINT is #hiring! ✨
Join us to help revolutionize how we decode the body’s immune memory, uncover the causes of chronic diseases, and drive breakthroughs in autoimmunity and neuropsychiatric research.
#BiotechJobs #Immunology #sciencejobs
Jobs — Imprint FRO
Join our team—current openings at Imprint
www.imprint.org
May 1, 2025 at 1:03 PM
Looking for a job in immunology or biotech research?
✨IMPRINT is #hiring! ✨
Join us to help revolutionize how we decode the body’s immune memory, uncover the causes of chronic diseases, and drive breakthroughs in autoimmunity and neuropsychiatric research.
#BiotechJobs #Immunology #sciencejobs
✨IMPRINT is #hiring! ✨
Join us to help revolutionize how we decode the body’s immune memory, uncover the causes of chronic diseases, and drive breakthroughs in autoimmunity and neuropsychiatric research.
#BiotechJobs #Immunology #sciencejobs
Reposted by Julien Limenitakis
The AIRR Community Meeting VII #AIRRC7 is starting this Monday, June 3rd, at the University of Porto! A huge thank you to our sponsors. Your support is invaluable! Check out the full agenda and more details on the meeting page: tinyurl.com/airrcmeeting7
#Immunology
#Immunology
May 31, 2024 at 5:19 PM
The AIRR Community Meeting VII #AIRRC7 is starting this Monday, June 3rd, at the University of Porto! A huge thank you to our sponsors. Your support is invaluable! Check out the full agenda and more details on the meeting page: tinyurl.com/airrcmeeting7
#Immunology
#Immunology
Reposted by Julien Limenitakis
A new variety of reverse transcriptase discovered in bacteria “reads RNA as a template to make completely new genes written in DNA. These genes are then transcribed back into RNA, which is translated into protective proteins when a bacterium is infected by a virus.”
🐋🌱🧪🦋🦫 #EvoBio
🐋🌱🧪🦋🦫 #EvoBio
Bizarre bacteria defy textbooks by writing new genes
Bacterial defensive systems scramble the standard workflow of life. Bacterial defensive systems scramble the standard workflow of life.
www.nature.com
May 22, 2024 at 5:07 PM
A new variety of reverse transcriptase discovered in bacteria “reads RNA as a template to make completely new genes written in DNA. These genes are then transcribed back into RNA, which is translated into protective proteins when a bacterium is infected by a virus.”
🐋🌱🧪🦋🦫 #EvoBio
🐋🌱🧪🦋🦫 #EvoBio
Reposted by Julien Limenitakis
Register for the AIRR-C 7 meeting! Once registered, remember to sign up for the workshops and tutorials through the meeting app!. Also, if you haven’t already be sure to sign up for the fabulous Cálem Port Wine Cellars Tour & Group Dinner. www.antibodysociety.org/the-airr-com...
#AIRRC7 #Immunology
#AIRRC7 #Immunology
AIRR Community Meeting VII - Learnings and Perspectives - The Antibody Society
15 years after the first AIRR-seq sequencing, what have we learned in the basic and biomedical research fields? What is next? Join us at the AIRR-C Meeting in Porto this June, the premiere event for g...
www.antibodysociety.org
May 7, 2024 at 5:16 PM
Register for the AIRR-C 7 meeting! Once registered, remember to sign up for the workshops and tutorials through the meeting app!. Also, if you haven’t already be sure to sign up for the fabulous Cálem Port Wine Cellars Tour & Group Dinner. www.antibodysociety.org/the-airr-com...
#AIRRC7 #Immunology
#AIRRC7 #Immunology
Reposted by Julien Limenitakis
Our bit for PLOS Bio’s special on symbiosis thinking about the (under-appreciated) role of fitness trade-offs in the origins of endosymbiosis journals.plos.org/plosbiology/...
April 18, 2024 at 7:23 AM
Our bit for PLOS Bio’s special on symbiosis thinking about the (under-appreciated) role of fitness trade-offs in the origins of endosymbiosis journals.plos.org/plosbiology/...
Reposted by Julien Limenitakis
In new study led by Andrea Loes, we develop sequencing-based neutralization assay that measures replicate curves for hundreds of virus-serum pairs per 96-well plate (see image below)
www.biorxiv.org/content/10.1...
We apply assay to characterize response to repeat influenza vaccination
www.biorxiv.org/content/10.1...
We apply assay to characterize response to repeat influenza vaccination
March 10, 2024 at 6:08 PM
In new study led by Andrea Loes, we develop sequencing-based neutralization assay that measures replicate curves for hundreds of virus-serum pairs per 96-well plate (see image below)
www.biorxiv.org/content/10.1...
We apply assay to characterize response to repeat influenza vaccination
www.biorxiv.org/content/10.1...
We apply assay to characterize response to repeat influenza vaccination
Reposted by Julien Limenitakis
Addressing technical pitfalls in pursuit of molecular factors that mediate immunoglobulin gene regulation biorxiv.org/cgi/content/... #biorxiv_genomic
March 9, 2024 at 11:32 AM
Addressing technical pitfalls in pursuit of molecular factors that mediate immunoglobulin gene regulation biorxiv.org/cgi/content/... #biorxiv_genomic
Reposted by Julien Limenitakis
Review: Single-cell genomics meets human genetics www.nature.com/articles/s41... 🧬🖥️
Single-cell genomics meets human genetics - Nature Reviews Genetics
In this Review, the authors describe the emerging field of single-cell genetics, which lies at the intersection of single-cell genomics and human genetics. They review the first single-cell expression...
www.nature.com
March 1, 2024 at 10:30 AM
Review: Single-cell genomics meets human genetics www.nature.com/articles/s41... 🧬🖥️
Reposted by Julien Limenitakis
Bioframe: operations on genomic intervals in Pandas dataframes academic.oup.com/bioinformati... 🧬🖥️ github.com/open2c/biofr...
Bioframe: operations on genomic intervals in Pandas dataframes
AbstractMotivation. Genomic intervals are one of the most prevalent data structures in computational genome biology, and used to represent features ranging from
academic.oup.com
March 1, 2024 at 10:30 AM
Bioframe: operations on genomic intervals in Pandas dataframes academic.oup.com/bioinformati... 🧬🖥️ github.com/open2c/biofr...
Reposted by Julien Limenitakis
An optimized culturomics strategy for isolation of human milk microbiota www.frontiersin.org/journals/mic... #jcampubs
Frontiers | An optimized culturomics strategy for isolation of human milk microbiota
<p>Viable microorganisms and a diverse microbial ecosystem found in human milk play a crucial role in promoting healthy immune system and shaping the microbi...
www.frontiersin.org
March 1, 2024 at 2:04 PM
An optimized culturomics strategy for isolation of human milk microbiota www.frontiersin.org/journals/mic... #jcampubs
Reposted by Julien Limenitakis
The Hallmarks of Cancer Research 🧪
March 1, 2024 at 7:00 PM
The Hallmarks of Cancer Research 🧪
Reposted by Julien Limenitakis
Thrilled to share our latest paper on commensal colonization during early life! This study explores how human milk oligosaccharides trigger the colonization program in Bacteroides fragilis. 🦠🧫🧪 www.sciencedirect.com/science/arti...
January 15, 2024 at 4:55 PM
Thrilled to share our latest paper on commensal colonization during early life! This study explores how human milk oligosaccharides trigger the colonization program in Bacteroides fragilis. 🦠🧫🧪 www.sciencedirect.com/science/arti...
Reposted by Julien Limenitakis
January 16, 2024 at 2:37 AM
Reposted by Julien Limenitakis
Stochastic Models and Experiments in Ecology and Biology (SMEEB) 2024 L'Aquila, Italy from May 28th to 31st, 2024
Theory, experiment and data in microbial ecology, evolution and systems biology!
Featuring @saramitri.bsky.social and @seppekuehnlab.bsky.social
#evosky #livingmatter
Theory, experiment and data in microbial ecology, evolution and systems biology!
Featuring @saramitri.bsky.social and @seppekuehnlab.bsky.social
#evosky #livingmatter
January 15, 2024 at 2:08 PM
Stochastic Models and Experiments in Ecology and Biology (SMEEB) 2024 L'Aquila, Italy from May 28th to 31st, 2024
Theory, experiment and data in microbial ecology, evolution and systems biology!
Featuring @saramitri.bsky.social and @seppekuehnlab.bsky.social
#evosky #livingmatter
Theory, experiment and data in microbial ecology, evolution and systems biology!
Featuring @saramitri.bsky.social and @seppekuehnlab.bsky.social
#evosky #livingmatter
Reposted by Julien Limenitakis
In new study led by Frances Welsh, we map how mutations to influenza affect neutralization by antibodies from humans of various ages
We find differences in mutation effects among age groups
Virus seems to evolve especially to escape antibodies of teenagers
www.biorxiv.org/content/10.1...
We find differences in mutation effects among age groups
Virus seems to evolve especially to escape antibodies of teenagers
www.biorxiv.org/content/10.1...
Age-dependent heterogeneity in the antigenic effects of mutations to influenza hemagglutinin
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
December 17, 2023 at 4:22 PM
In new study led by Frances Welsh, we map how mutations to influenza affect neutralization by antibodies from humans of various ages
We find differences in mutation effects among age groups
Virus seems to evolve especially to escape antibodies of teenagers
www.biorxiv.org/content/10.1...
We find differences in mutation effects among age groups
Virus seems to evolve especially to escape antibodies of teenagers
www.biorxiv.org/content/10.1...
Reposted by Julien Limenitakis
Closing out the year with a fresh preprint! 🤓🧪
Exogenous mitochondrial transfer increases energy expenditure and attenuates adiposity gains in mice with diet-induced obesity https://www.biorxiv.org/content/10.1101/2023.12.23.573206v1
Exogenous mitochondrial transfer increases energy expenditure and attenuates adiposity gains in mice with diet-induced obesity https://www.biorxiv.org/content/10.1101/2023.12.23.573206v1
Obesity is associated with chronic multi-system bioenergetic stress that may be improved by increasi
www.biorxiv.org
December 24, 2023 at 6:29 AM
Closing out the year with a fresh preprint! 🤓🧪
Reposted by Julien Limenitakis
A very nice method for detection of sweeps in gut microbial populations:
December 24, 2023 at 4:14 AM
A very nice method for detection of sweeps in gut microbial populations:
Reposted by Julien Limenitakis
New paper on statistical predictions of bacterial traits from genomes. This is a deep technical dive into the intricacies of how to perform these predictions, when and how they work, and when they can reveal underlying mechanisms. journals.plos.org/ploscompbiol...
December 20, 2023 at 3:11 PM
New paper on statistical predictions of bacterial traits from genomes. This is a deep technical dive into the intricacies of how to perform these predictions, when and how they work, and when they can reveal underlying mechanisms. journals.plos.org/ploscompbiol...
Reposted by Julien Limenitakis
Extremely excited to share that our effort to identify and characterize novel gene families exclusive of uncultivated taxa is now published in Nature!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Functional and evolutionary significance of unknown genes from uncultivated taxa - Nature
Nature - Functional and evolutionary significance of unknown genes from uncultivated taxa
www.nature.com
December 19, 2023 at 11:19 AM
Extremely excited to share that our effort to identify and characterize novel gene families exclusive of uncultivated taxa is now published in Nature!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Julien Limenitakis
Multistability driven by cooperative growth in microbial communities www.biorxiv.org/content/10.1... #jcampubs
Multistability driven by cooperative growth in microbial communities
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
December 14, 2023 at 1:53 PM
Multistability driven by cooperative growth in microbial communities www.biorxiv.org/content/10.1... #jcampubs
Reposted by Julien Limenitakis
Hybracter: Enabling Scalable, Automated, Complete and Accurate Bacterial Genome Assemblies www.biorxiv.org/content/10.1... #jcampubs
Hybracter: Enabling Scalable, Automated, Complete and Accurate Bacterial Genome Assemblies
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
December 14, 2023 at 1:56 PM
Hybracter: Enabling Scalable, Automated, Complete and Accurate Bacterial Genome Assemblies www.biorxiv.org/content/10.1... #jcampubs
Reposted by Julien Limenitakis
A big step forward in the science of aging: organ-specific tracking via plasma proteins
www.nature.com/articles/s41...
20% of people assessed had accelerated aging in 1 organ, 1.7% multi-organ
www.nature.com/articles/s41...
20% of people assessed had accelerated aging in 1 organ, 1.7% multi-organ
December 6, 2023 at 8:50 PM
A big step forward in the science of aging: organ-specific tracking via plasma proteins
www.nature.com/articles/s41...
20% of people assessed had accelerated aging in 1 organ, 1.7% multi-organ
www.nature.com/articles/s41...
20% of people assessed had accelerated aging in 1 organ, 1.7% multi-organ