Ingrida Olendraite
@ingrida.bsky.social
CSO at VUGENE | Bioinformatics for your research. Molecular Biology of RNA viruses and RdRp. Transitioning from Virology bioinformatics postdoc at Firth group, University of Cambridge. Views my own.
Reposted by Ingrida Olendraite
Paper alert 📢: What drives variation in humoral responses to viruses? collab with @etienne-patin.bsky.social @darraghduffy.bsky.social @lquintanamurci.bsky.social we show that for ~98k viral epitopes immunodominance vary by genetics, sex and origin: www.nature.com/articles/s41...
February 16, 2026 at 4:27 PM
Paper alert 📢: What drives variation in humoral responses to viruses? collab with @etienne-patin.bsky.social @darraghduffy.bsky.social @lquintanamurci.bsky.social we show that for ~98k viral epitopes immunodominance vary by genetics, sex and origin: www.nature.com/articles/s41...
Hooray 🎉 from virologists! :)
The AlphaFold Database, jointly developed with Google DeepMind, now contains datasets from specialist communities.
This includes rich datasets for microbes, viruses & parasites associated with tropical diseases.
Explore the new datasets in the AlphaFold Database.
www.ebi.ac.uk/about/news/u...
This includes rich datasets for microbes, viruses & parasites associated with tropical diseases.
Explore the new datasets in the AlphaFold Database.
www.ebi.ac.uk/about/news/u...
AlphaFold Database welcomes community datasets
Latest AlphaFold Database update adds high-value datasets for microbial and viral proteins, generated by specialist communities
www.ebi.ac.uk
February 17, 2026 at 4:41 PM
Hooray 🎉 from virologists! :)
I cherish this mug so much that I don't even use it for liquids..
And it's from the 1993 my beloved paper by Dolja and Koonin. I will forever be grateful for @thekatybrown.bsky.social for such a thoughtful gift! :)
Their work was also what got me into virology without any hesitation:)
And it's from the 1993 my beloved paper by Dolja and Koonin. I will forever be grateful for @thekatybrown.bsky.social for such a thoughtful gift! :)
Their work was also what got me into virology without any hesitation:)
February 12, 2026 at 7:12 PM
I cherish this mug so much that I don't even use it for liquids..
And it's from the 1993 my beloved paper by Dolja and Koonin. I will forever be grateful for @thekatybrown.bsky.social for such a thoughtful gift! :)
Their work was also what got me into virology without any hesitation:)
And it's from the 1993 my beloved paper by Dolja and Koonin. I will forever be grateful for @thekatybrown.bsky.social for such a thoughtful gift! :)
Their work was also what got me into virology without any hesitation:)
Milica Raco hosting the prof Dolja! :)
Join us on Zoom:
oregonstate.zoom.us/j/9426515785...
RNA virus club by @rdrpsummit.bsky.social
Join us on Zoom:
oregonstate.zoom.us/j/9426515785...
RNA virus club by @rdrpsummit.bsky.social
February 12, 2026 at 7:07 PM
Milica Raco hosting the prof Dolja! :)
Join us on Zoom:
oregonstate.zoom.us/j/9426515785...
RNA virus club by @rdrpsummit.bsky.social
Join us on Zoom:
oregonstate.zoom.us/j/9426515785...
RNA virus club by @rdrpsummit.bsky.social
what can be better than global RNA virome and Dolja?
Nothing for me.. :)
Join RNA virus club (by @rdrpsummit.bsky.social ) already tomorrow:
Thu, Feb 12, 11:00 AM Pacific Time (US 🇺🇸, Canada🇨🇦)
(or 7pm London time 🇬🇧)
for an hour with one and only Prof. Valerian Dolja (Oregon State University)
Nothing for me.. :)
Join RNA virus club (by @rdrpsummit.bsky.social ) already tomorrow:
Thu, Feb 12, 11:00 AM Pacific Time (US 🇺🇸, Canada🇨🇦)
(or 7pm London time 🇬🇧)
for an hour with one and only Prof. Valerian Dolja (Oregon State University)
February 11, 2026 at 8:58 PM
what can be better than global RNA virome and Dolja?
Nothing for me.. :)
Join RNA virus club (by @rdrpsummit.bsky.social ) already tomorrow:
Thu, Feb 12, 11:00 AM Pacific Time (US 🇺🇸, Canada🇨🇦)
(or 7pm London time 🇬🇧)
for an hour with one and only Prof. Valerian Dolja (Oregon State University)
Nothing for me.. :)
Join RNA virus club (by @rdrpsummit.bsky.social ) already tomorrow:
Thu, Feb 12, 11:00 AM Pacific Time (US 🇺🇸, Canada🇨🇦)
(or 7pm London time 🇬🇧)
for an hour with one and only Prof. Valerian Dolja (Oregon State University)
Remember? RNA virus journal club is already this Thursday! 🤩
Join us and join our (RdRp summit) slack (link in the comment):
calendar.app.google/K2fwcsL78K1E...
RNA Virus Journal ClubJoin Zoom Meeting us02web.zoom.us/j/8109697228...
Meeting ID: 810 9697 2281
Passcode: 174610
Join us and join our (RdRp summit) slack (link in the comment):
calendar.app.google/K2fwcsL78K1E...
RNA Virus Journal ClubJoin Zoom Meeting us02web.zoom.us/j/8109697228...
Meeting ID: 810 9697 2281
Passcode: 174610
January 14, 2026 at 9:36 AM
Remember? RNA virus journal club is already this Thursday! 🤩
Join us and join our (RdRp summit) slack (link in the comment):
calendar.app.google/K2fwcsL78K1E...
RNA Virus Journal ClubJoin Zoom Meeting us02web.zoom.us/j/8109697228...
Meeting ID: 810 9697 2281
Passcode: 174610
Join us and join our (RdRp summit) slack (link in the comment):
calendar.app.google/K2fwcsL78K1E...
RNA Virus Journal ClubJoin Zoom Meeting us02web.zoom.us/j/8109697228...
Meeting ID: 810 9697 2281
Passcode: 174610
Save the date for phylogenetics!
RNA virus Journal Club returns ( @rdrpsummit.bsky.social ) with @evogytis.bsky.social intro to his "Baltic" - python module to visualise phylogenetic trees.
January 15th (Thu) - EEST Vilnius Time 3:00 PM
Join slack for updates: join.slack.com/t/rdrp-io/sh...
RNA virus Journal Club returns ( @rdrpsummit.bsky.social ) with @evogytis.bsky.social intro to his "Baltic" - python module to visualise phylogenetic trees.
January 15th (Thu) - EEST Vilnius Time 3:00 PM
Join slack for updates: join.slack.com/t/rdrp-io/sh...
January 9, 2026 at 1:31 PM
Save the date for phylogenetics!
RNA virus Journal Club returns ( @rdrpsummit.bsky.social ) with @evogytis.bsky.social intro to his "Baltic" - python module to visualise phylogenetic trees.
January 15th (Thu) - EEST Vilnius Time 3:00 PM
Join slack for updates: join.slack.com/t/rdrp-io/sh...
RNA virus Journal Club returns ( @rdrpsummit.bsky.social ) with @evogytis.bsky.social intro to his "Baltic" - python module to visualise phylogenetic trees.
January 15th (Thu) - EEST Vilnius Time 3:00 PM
Join slack for updates: join.slack.com/t/rdrp-io/sh...
Reposted by Ingrida Olendraite
Loved this brilliant biography of Crick by @matthewcobb.bsky.social But what struck me from the start: it's also a portrait of a lost time in science: no grant applications or teaching, big travel budgets: the job only to think, talk & get science done. Future scientific biogs will be so different.
December 31, 2025 at 8:38 PM
Loved this brilliant biography of Crick by @matthewcobb.bsky.social But what struck me from the start: it's also a portrait of a lost time in science: no grant applications or teaching, big travel budgets: the job only to think, talk & get science done. Future scientific biogs will be so different.
It's today! December 11th
Finding endogenous viral elements in genomic data 🧑💻
by Sebastian Lequime (University of Groningen @rug.nl )
Time: 2pm EST🇺🇸 / 8pm CET 🇪🇺 / 4am JST 🇯🇵
Join @rdrpsummit.bsky.social RNA Virus Journal Club talk & discussion: oregonstate.zoom.us/j/9164101918...
#rdrpsummit
Finding endogenous viral elements in genomic data 🧑💻
by Sebastian Lequime (University of Groningen @rug.nl )
Time: 2pm EST🇺🇸 / 8pm CET 🇪🇺 / 4am JST 🇯🇵
Join @rdrpsummit.bsky.social RNA Virus Journal Club talk & discussion: oregonstate.zoom.us/j/9164101918...
#rdrpsummit
detectEVE: Fast, Sensitive and Precise Detection of Endogenous Viral Elements in Genomic Data
Endogenous viral elements (EVEs) are fragments of viral genomic material embedded within the host genome. Retroviruses contribute to the majority of EVEs because of their genomic integration during t...
onlinelibrary.wiley.com
December 11, 2025 at 10:28 AM
It's today! December 11th
Finding endogenous viral elements in genomic data 🧑💻
by Sebastian Lequime (University of Groningen @rug.nl )
Time: 2pm EST🇺🇸 / 8pm CET 🇪🇺 / 4am JST 🇯🇵
Join @rdrpsummit.bsky.social RNA Virus Journal Club talk & discussion: oregonstate.zoom.us/j/9164101918...
#rdrpsummit
Finding endogenous viral elements in genomic data 🧑💻
by Sebastian Lequime (University of Groningen @rug.nl )
Time: 2pm EST🇺🇸 / 8pm CET 🇪🇺 / 4am JST 🇯🇵
Join @rdrpsummit.bsky.social RNA Virus Journal Club talk & discussion: oregonstate.zoom.us/j/9164101918...
#rdrpsummit
Reposted by Ingrida Olendraite
Expressions of interest are now open to host the @isvm-society.bsky.social #VOM28 conference.
Let us know if you'd like to host the world's leading conference on viruses of microbes!
isvm.org
#phagesky #virus
Let us know if you'd like to host the world's leading conference on viruses of microbes!
isvm.org
#phagesky #virus
ISVM – International Society for Viruses of Microorganisms
isvm.org
November 3, 2025 at 11:36 PM
Expressions of interest are now open to host the @isvm-society.bsky.social #VOM28 conference.
Let us know if you'd like to host the world's leading conference on viruses of microbes!
isvm.org
#phagesky #virus
Let us know if you'd like to host the world's leading conference on viruses of microbes!
isvm.org
#phagesky #virus
RNA Virus Journal Club – Upcoming Talk - this thursday (Nov 6th !)
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
CLAE: A High‐Fidelity Nanopore Sequencing Strategy for Read‐Level Viral Variant Detection and Environmental RNA Virus Discovery
High-fidelity Nanopore sequencing offers a cost-effective, portable path to uncovering viral dark matter in complex environments—but suffers from severe read-length bias, low throughput, and limited ...
doi.org
November 4, 2025 at 3:10 PM
RNA Virus Journal Club – Upcoming Talk - this thursday (Nov 6th !)
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
Reposted by Ingrida Olendraite
We are looking for mentors for the Sci.STEPS program! Please apply if you want to help your junior colleagues around the globe navigate their career path in any science related field.
🤩Join the Sci.STEPS 2026 Mentor Cohort!
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
October 24, 2025 at 12:22 PM
We are looking for mentors for the Sci.STEPS program! Please apply if you want to help your junior colleagues around the globe navigate their career path in any science related field.
Reposted by Ingrida Olendraite
Assembling MAGs from Amazonian soils is a challenge, but it has become one of our most useful tools to understand these complex communities. Check out our new paper at MRA @asm.org doi.org/10.1128/mra.... in collaboration with @louberrios.bsky.social @jubgontijo.bsky.social @mykophile.bsky.social
A catalog of metagenome-assembled genomes from Amazonian forest and pasture soils | Microbiology Resource Announcements
Our group previously recovered 64 bacterial and 5 archaeal metagenome-assembled genomes
(MAGs) from Amazonian forest and pasture soils and evaluated their genomic traits
(1). Here, we formally announc...
doi.org
October 3, 2025 at 5:45 PM
Assembling MAGs from Amazonian soils is a challenge, but it has become one of our most useful tools to understand these complex communities. Check out our new paper at MRA @asm.org doi.org/10.1128/mra.... in collaboration with @louberrios.bsky.social @jubgontijo.bsky.social @mykophile.bsky.social
Reposted by Ingrida Olendraite
Willing to join us @pasteur.fr for a PhD for a project on how interactions between mobile genetic elements shape bacterial adaptation? Subject to be tailored to candidates with keen interest in evolution, genomics, computational biology, microbiology. Check www.pasteur.fr/en/education...
September 8, 2025 at 8:56 AM
Willing to join us @pasteur.fr for a PhD for a project on how interactions between mobile genetic elements shape bacterial adaptation? Subject to be tailored to candidates with keen interest in evolution, genomics, computational biology, microbiology. Check www.pasteur.fr/en/education...
While Logan has been wonderful for quite some time - I just recently have played with logan-search!
Such a time saving tool! 🔥 Thank you to the whole team with @rayanchikhi.bsky.social at the forefront of it 💎! 🙏🏼
Such a time saving tool! 🔥 Thank you to the whole team with @rayanchikhi.bsky.social at the forefront of it 💎! 🙏🏼
Logan enables minute-scale k-mer search, and hour-scale deep homology protein alignment search, across 100+ Billion proteins.
www.logan-search.org
www.logan-search.org
September 7, 2025 at 7:11 PM
While Logan has been wonderful for quite some time - I just recently have played with logan-search!
Such a time saving tool! 🔥 Thank you to the whole team with @rayanchikhi.bsky.social at the forefront of it 💎! 🙏🏼
Such a time saving tool! 🔥 Thank you to the whole team with @rayanchikhi.bsky.social at the forefront of it 💎! 🙏🏼
This is the absolute beauty coming from @rayanchikhi.bsky.social et al! 🔥😍 If you don't quite yet fully know what Logan is and what it is capable of: check the 🧵 and most importantly the updated preprint 📑. One of those things to print and simply admire 🧠🩷
🌎👩🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
September 7, 2025 at 7:08 PM
This is the absolute beauty coming from @rayanchikhi.bsky.social et al! 🔥😍 If you don't quite yet fully know what Logan is and what it is capable of: check the 🧵 and most importantly the updated preprint 📑. One of those things to print and simply admire 🧠🩷
what a phenomenally beautiful people group has @evogytis.bsky.social and @mgabrielaite.bsky.social assembled! Thx for the invite! Had a 3-day-blast talking virology and afterwards dreaming while sleeping about all my virus metagenomics people enjoying their time in Monaco 😁 (too much F1 recently...)
Last week we had a 3-day lab retreat at Vilnius University's base in Puvočiai with Lander de Coninck & @ingrida.bsky.social joining us as visitors. These retreats keep getting better & more productive thanks to the students & especially fellow PI @mgabrielaite.bsky.social. I'm super proud!
September 3, 2025 at 6:54 AM
what a phenomenally beautiful people group has @evogytis.bsky.social and @mgabrielaite.bsky.social assembled! Thx for the invite! Had a 3-day-blast talking virology and afterwards dreaming while sleeping about all my virus metagenomics people enjoying their time in Monaco 😁 (too much F1 recently...)
Already tomorrow! @rdrpsummit.bsky.social starts with journal club - be there from the start! ..be it for the Unicore publication ( @dongwookkim.bsky.social ) or joining / enjoying the community of virus discovery (& annotation).
September 4, 2025, from 14:00 to 14:45 CEST
rdrp.io/journal-club...
September 4, 2025, from 14:00 to 14:45 CEST
rdrp.io/journal-club...
September 3, 2025 at 6:50 AM
Already tomorrow! @rdrpsummit.bsky.social starts with journal club - be there from the start! ..be it for the Unicore publication ( @dongwookkim.bsky.social ) or joining / enjoying the community of virus discovery (& annotation).
September 4, 2025, from 14:00 to 14:45 CEST
rdrp.io/journal-club...
September 4, 2025, from 14:00 to 14:45 CEST
rdrp.io/journal-club...
Happy world RNA day! AUG1 🎉 🎉 🎉
While RNA is a magnificent molecule - world is still lacking the understanding of this diverse molecule!
This is why a bunch of us, RNA enthusiasts, wrote the book "Code: RNA" to Lithuania's general public.
#RNAday
While RNA is a magnificent molecule - world is still lacking the understanding of this diverse molecule!
This is why a bunch of us, RNA enthusiasts, wrote the book "Code: RNA" to Lithuania's general public.
#RNAday
August 1, 2025 at 2:42 PM
Happy world RNA day! AUG1 🎉 🎉 🎉
While RNA is a magnificent molecule - world is still lacking the understanding of this diverse molecule!
This is why a bunch of us, RNA enthusiasts, wrote the book "Code: RNA" to Lithuania's general public.
#RNAday
While RNA is a magnificent molecule - world is still lacking the understanding of this diverse molecule!
This is why a bunch of us, RNA enthusiasts, wrote the book "Code: RNA" to Lithuania's general public.
#RNAday
Reposted by Ingrida Olendraite
This is quite late but our lab has a preprint out about a SARS-CoV-2 situation we had in mink in Lithuania back in 2021. It's a doozy with re-emergence of extinct lineages, a country-wide test of all mink farms in Lithuania & some interesting dynamics in mink. www.medrxiv.org/content/10.1... 1/5🧵
July 17, 2025 at 8:44 AM
This is quite late but our lab has a preprint out about a SARS-CoV-2 situation we had in mink in Lithuania back in 2021. It's a doozy with re-emergence of extinct lineages, a country-wide test of all mink farms in Lithuania & some interesting dynamics in mink. www.medrxiv.org/content/10.1... 1/5🧵
One of the small life joys is how Macs with M chip batteries basically never die. You travel, forget your chargers etc - never a problem.
Apple switching to ARMs MX chips is actually a reason I finally made a transition from my non-apple computer to mac.
Happy weekend!
Apple switching to ARMs MX chips is actually a reason I finally made a transition from my non-apple computer to mac.
Happy weekend!
June 20, 2025 at 3:57 PM
One of the small life joys is how Macs with M chip batteries basically never die. You travel, forget your chargers etc - never a problem.
Apple switching to ARMs MX chips is actually a reason I finally made a transition from my non-apple computer to mac.
Happy weekend!
Apple switching to ARMs MX chips is actually a reason I finally made a transition from my non-apple computer to mac.
Happy weekend!
Reposted by Ingrida Olendraite
how many 21-mers are shared between different species genomes at the genus level? #sourmash
Question about the impact of shared genus-level k-mers on abundance estimation · Issue #3694 · sourmash-bio/sourmash
Hi @ctb and collaborators, I had a thought recently and wanted to ask your input. I'm regularly using sourmash gather to estimate compositions (taxonomy + abundance), as well as Kraken and other no...
github.com
June 19, 2025 at 2:01 PM
how many 21-mers are shared between different species genomes at the genus level? #sourmash
Not just great k-mer content but some important historical facts (: Thanks @rayanchikhi.bsky.social !
June 9, 2025 at 12:56 PM
Not just great k-mer content but some important historical facts (: Thanks @rayanchikhi.bsky.social !
This is for sure my fav book. This is why I am going through it slowly. Thanks to Bluey (: can read it for a bit on a Saturday morning:).
"Promoting opportunity depends not only upon an open road, but upon an equal start" / R.H. Tawney "Equality" 1930.
"Promoting opportunity depends not only upon an open road, but upon an equal start" / R.H. Tawney "Equality" 1930.
May 24, 2025 at 8:41 AM
This is for sure my fav book. This is why I am going through it slowly. Thanks to Bluey (: can read it for a bit on a Saturday morning:).
"Promoting opportunity depends not only upon an open road, but upon an equal start" / R.H. Tawney "Equality" 1930.
"Promoting opportunity depends not only upon an open road, but upon an equal start" / R.H. Tawney "Equality" 1930.
Reposted by Ingrida Olendraite
And founding ARTIC member @ian-goodfellow.bsky.social (@uniofcam.bsky.social) will build innovative portable and low-cost laboratory solutions and training packages to accompany them, now working with new ARTIC investigator Jenny Molloy who will develop open-source wet lab reagents for sequencing
May 22, 2025 at 11:22 AM
And founding ARTIC member @ian-goodfellow.bsky.social (@uniofcam.bsky.social) will build innovative portable and low-cost laboratory solutions and training packages to accompany them, now working with new ARTIC investigator Jenny Molloy who will develop open-source wet lab reagents for sequencing