Loukas Theodosiou Profile Banner
Loukas Theodosiou Profile
Loukas Theodosiou

@loukesio

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Senior Bioinformatician at @MPI_EvolBio and @RaineyLab . Data Science, Bioinformatics, Machine Learning, R, Rcpp, Python

Plön, Schleswig-Holstein
Joined August 2011
Don't wanna be here? Send us removal request.
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@loukesio
Loukas Theodosiou
1 year
Our work with @RaineyLab & @andydfarr on barcoding bacterial populations is online . Barcoded populations are promising in solving complex questions requiring high statistical power. There is more on the way. Stay tuned! 😊
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@loukesio
Loukas Theodosiou
9 months
Excited to introduce #ggvloc ! 🎉 For everyone working with differential expression datasets & RNAseq data, this can be a game-changer. Visualize & highlight genes of interest in just one line of code Check out the package here:. Don't forget to give it a ⭐
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@loukesio
Loukas Theodosiou
4 months
📣 Dear Friends: I've decided to leave academia. It wasn't an easy decision, but it's the right one for me and my family. Moving to Cologne was a fantastic personal decision, but professionally, it didn't align with my goals. Sometimes, the path we choose isn't the one we expect.
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@loukesio
Loukas Theodosiou
4 years
I am excited to announce that our workshop, "Evolving Microbial Communities", will take place at the @MPI_EvolBio at the end of April 2020. The workshop is organised by Andy Farr and me with the invaluable help of @RaineyLab . Please RT😀and register here:
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Loukas Theodosiou
2 years
We have a new preprint with @andydfarr and @RaineyLab . If you are interested in barcoding a microbial species, have a look at our adventure to barcode P.fluorescens SBW25.
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@loukesio
Loukas Theodosiou
3 years
🚨Applications for 2022 summer meetings on Microbial Communities/Microbial Evolution are closing in a month.🚨 We are looking forward to receiving your application! Dear Twitter friends, please RT and spread the word! Apply here -
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@loukesio
Loukas Theodosiou
2 years
Together with Kristian Ullrich, we have written a small R package for colour palettes. It is helping us save some time when we choose colours for our ggplots. We hope that you find it useful as well.
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@loukesio
Loukas Theodosiou
2 years
How does it sound when you leave @MPI_EvolBio after 8+ years?
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@loukesio
Loukas Theodosiou
2 years
One thing I love about #RStats is the inclusiveness, transparency, and will to teach everyone programming and data visualization. It comes to me as a huge surprise when people ask you 1500$ to teach you how to build a shinyapp when this book is free online
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@loukesio
Loukas Theodosiou
1 year
Working for the last 5 years with DNA barcoded sequences, I always needed an R-package that simulates DNA barcode sequences to have complete control while testing our pipelines and software. For this, I made BarcoSim.
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@loukesio
Loukas Theodosiou
2 years
That was it
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@loukesio
Loukas Theodosiou
3 years
I am excited to announce two in person workshop meetings for Summer 2022. The workshops are organised by @TanushJagdish , @fatiaysh , @AlitaBurmeister , Andrew Farr, Clara Moreno and me with the invaluable help of @RaineyLab . Please RT 😃 and apply in here
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@loukesio
Loukas Theodosiou
3 years
"The great Plön Fog" 🌫️🌫️
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@loukesio
Loukas Theodosiou
7 years
… Our PNAS paper is out 😀Read about the eco-evo dynamics that develop in a three species system. Super Jens & Lutz
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@loukesio
Loukas Theodosiou
4 years
Today, together with Carsten and Kristian, we are starting the first online course in @MPI_EvolBio about R basics and Data Visualisation. In this thread, we 'll post the plots and code from the participants. 😀 @R4DScommunity #r4ds #tidyverse #rstats #dataviz
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@loukesio
Loukas Theodosiou
11 months
🌟 Our new package, e-Leven, allows us to calculate and plot Levenshtein distances among DNA sequences, enabling us to explore and compare genetic variations efficiently and accurately. Part of it is the function colorDNAseq: for colouring DNAseqs.
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@loukesio
Loukas Theodosiou
4 months
In hindsight, staying in Plön or joining one of favorite labs in the US might have been different paths. But every decision is a learning opportunity. #Reflections
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@loukesio
Loukas Theodosiou
1 year
If you want some pain in your life, then download R 4.3.0! There will definitely be a bunch of libraries not working 😂 #RStats #RStudio
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@loukesio
Loukas Theodosiou
5 years
With the help of Lutz and @Teppo_Hiltunen I made an infographic explaining the effect of an abiotic stressor onto the eco-evolutionary dynamics of a predator-prey system.
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Loukas Theodosiou
1 year
10 years have passed since the time I was in Munich. During these years, we have changed several countries and cities. Looking forward to see familiar and new faces!
@EESLMU1
EES@LMU
1 year
👇👇👇 @EESLMU1 alumni seminar 👇👇👇👇continues with @loukesio from the MPI Plön. We will hear about the genomic characterization of biodiversity in Pseudomonas fluorescens SBW25. When? Jan 25th at 14:00 CET. If you want to join the seminar via zoom please dm.
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@loukesio
Loukas Theodosiou
3 years
#dataviz #RStats #creativecoding Inspired by the white sharks and pinterest images. Made in R with #ggplot2 and #ggforce
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@loukesio
Loukas Theodosiou
4 months
I'm not stepping away from science. I'm committed to completing all pending academic work. Excited to share more barcode research and mathematical models in the coming year!
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@loukesio
Loukas Theodosiou
4 months
I've had the privilege of working with many incredible people in academia. While I can't name everyone here, your impact has been profound and appreciated.
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@loukesio
Loukas Theodosiou
3 years
These are my latest graphic designs for our soon to come R packages.
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@loukesio
Loukas Theodosiou
3 years
Dear Twitter friends, Which program and which database you use to annotate your newly discovered bacteriophage genomes? @phagedirectory Please RT 😀
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@loukesio
Loukas Theodosiou
7 years
One of the nicest ECO-EVO infographics!! @Teppo_Hiltunen @annaliisalaine
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@loukesio
Loukas Theodosiou
2 years
I am gonna apply!!!
@romanzapien
Román Zapién-Campos
2 years
We are excited to announce a workshop on the "Mathematical modelling of microbiomes" at @MPI_EvolBio !!! 📉💻🦠 We would like to welcome you in beautiful Plön from the 14th to 16th of September 2022. Application deadline is July 1st. (1/3)
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@loukesio
Loukas Theodosiou
2 years
Here comes #genuary again! Created with #ggplot2 and #rstats . #generativeart
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@loukesio
Loukas Theodosiou
1 year
Dear micro evo friends, There is an update related to Pseudomonas fluorescens SBW25 genome. We used PACBIO with an immense coverage of ~600x and Illumina to reassemble SBW25. Might seem small, but it was a huge effort driven from Carsten @RaineyLab
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@loukesio
Loukas Theodosiou
4 months
A heartfelt thank you to my supervisors: Paul Rainey, Dieter Ebert, Thomas Lenormmad, Christoph Haag, and Lutz Becks. Your guidance has been invaluable.
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@loukesio
Loukas Theodosiou
5 years
Our paper with @Teppo_Hiltunen and Lutz is out. How a stressor can alter eco-evolutionary feedback dynamics? Read more here
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Loukas Theodosiou
3 years
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@loukesio
Loukas Theodosiou
1 year
To not give the impression that everything goes super smoothly and there is only success, this is how a rejection letter for a grant sounds. At least I could go home earlier and play music ☺️☺️
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Loukas Theodosiou
2 years
My last talk before I leave Plön will be about my second child, "barbac". An R package to extract, cluster and quantify DNA barcode sequences. Cluster with any algorithm you like, calculate stats and beautiful graphs during the process
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@loukesio
Loukas Theodosiou
9 months
Dear tweeps soon to be blskyers, In collaboration with Kristian Ullrich, I'd like to present SNPless, a Nextflow pipeline developed for time series analysis of microbial genomics data 🧬. Give us a ⭐️ if you find useful and to stay updated!
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@loukesio
Loukas Theodosiou
5 years
Tim is an amazing person and scientist. Tim cares for his students and offers a stimulating environment in a high profile university. The PhD position that offers is an amazing opportunity😃😃 and Dresden is super beautiful. Please retweet :)
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@loukesio
Loukas Theodosiou
8 months
Dear tweeps soon-to-be blooskies, We have an updated version of our ltc package, which contains, among other enhancements, colour palettes based on the life and art of Pablo Picasso! Find it here … And feel free to give us a star or feedback! #dataviz
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@loukesio
Loukas Theodosiou
4 years
Long term predator-prey dynamics in the lab.
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@loukesio
Loukas Theodosiou
6 years
We wrote a review "Why Are Algal Viruses Not Always Successful?" Credits to Elena Horas and Lutz Becks for the nice collaboration and their effort
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@loukesio
Loukas Theodosiou
6 years
Only now I have started realising that there are pop-scientists. Something like pop-singers but for science. They mainly thrive on Twitter.
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@loukesio
Loukas Theodosiou
10 months
☀️🌞🌡️As part of this week's #tidytuesday dataset, I delved into the changes in global temperature on Earth from 1987 (the year of my birth) until today. #Rstats #dataviz #DataAnalytics
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Loukas Theodosiou
2 years
Almost impossible to keep up with the #30DayMapChallenge 😅! I ll try to complete all tasks at my own pace. Here is a hex map of Greece with the distribution of four critically endangered species 😀! The code in the link Made in R with #ggplot2 #RStats
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@loukesio
Loukas Theodosiou
6 years
Was great giving a talk today to the department of evolutionary biology at the Queen Mary University. I got valuable feedback and really interesting questions :)
@EizaguirreLab
Eizaguirre Lab
6 years
Brilliant talk by Loukas Theodosiou from The Max Planck Institute for Evolutionary Biology this afternoon. Introducing us to his fascinating work on eco-evolutionary dynamics. #Evology #EcoEvo #Ecology #Evolution
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@loukesio
Loukas Theodosiou
7 years
Four month anniversary of chemostat sampling 😫😀🤣
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@loukesio
Loukas Theodosiou
6 years
It feels really nice that part of our work is highlighted by the @nature journal. Most credits go to Lutz.
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@loukesio
Loukas Theodosiou
10 months
🚨Friends at #SMBE2023 who work in population genetics and ancient DNA, don't miss Marco's work. It's a great work
@_MarcoDeMartino
Marco De Martino
10 months
Did ancient domestic cats mix with European wildcats? Come see my poster (n944 SP) and find it out! #ercfelix #SMBE2023
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Loukas Theodosiou
3 years
Late in the party! Day 2 of #30DayMapChallenge . #lines Plotting the rivers of Greece + ggfx. Using #Rstats and #ggplot2 .
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@loukesio
Loukas Theodosiou
1 year
This workshop looks so cool. If you work in communities, eco-evolutionary dynamics and modelling do not miss the opportunity to apply! I will apply
@MPI_EvolBio
MPI for Evolutionary Biology
1 year
Open for abstract submission now:
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@loukesio
Loukas Theodosiou
7 years
Our work on recombination with Christoph and Thoma is online in Phil Trans B. 😀😀
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@loukesio
Loukas Theodosiou
2 years
🚨 6 days left to apply! Come to work in a beautiful place, in an outstanding scientific environment 🚨
@MPI_EvolBio
MPI for Evolutionary Biology
2 years
International Max-Planck Research School for Evolutionary Biology: Apply now!
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@loukesio
Loukas Theodosiou
7 years
attending the last talk of #eseb2017 with @agdelafilia
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@loukesio
Loukas Theodosiou
2 years
Also, do not miss other great relevant preprints from @_miloj , @s_venkataram and @skryazhi
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@loukesio
Loukas Theodosiou
3 years
its not really #generativeart but is still #aRt . More species to follow when there is time #RStats #ggplot2 #creativecoding
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@loukesio
Loukas Theodosiou
4 years
Day of 1/7 #PhotosOfMyLife . There are rules (no people, no explanations). Invited by @RaineyLab . I happily invite @m_karageorgi @mariabargues @Juanslugor
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@loukesio
Loukas Theodosiou
5 years
Dear Twitter friends please ReTweet. Our newly establishment department lead by Paul Rainey has a webpage. Check out all the exciting projects we are working on. @maxplanckpress @MPI_EvolBio
@RaineyLab
RaineyLab
5 years
The Microbial Population Biology Department at @MPI_EvolBio is now online . Come and check out what we're working on! #pseudomonas #experimentalevolution
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Loukas Theodosiou
5 years
Congratulations @LauraHindersin !!!! Well deserved :)
@maxplanckpress
Max Planck Society
5 years
Yay for the new generation of brilliant scientists! 😀 @maxplanckpress President Martin Stratmann with the winners of the Otto Hahn Medal, awarded annually by the Max Planck Society to early career researchers for outstanding scientific achievements. Congrats! 🥳 #maxplanck2019
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@loukesio
Loukas Theodosiou
3 years
@sbonhoeffer @ohallats @wc_ratcliff @HarmitMalik @PetrovADmitri @KSamerotte @betulland @evokerr @vivek_mutalik , Arjan de Visser, Lydia Robert, Silvia De Monte and Sinead Collins, we are excited to have you as keynote speakers for the Evolutionary Dynamics & Processes workshop
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@loukesio
Loukas Theodosiou
1 year
Many friends leave Twitter. Sadly, Twitter has turned bad. Beautiful people, I do not want to lose connection with you; this is my mastodon account loukesio @ecoevo .social
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@loukesio
Loukas Theodosiou
6 years
Martin was not only a great scientist but also a great person. We passed together the Christmas of 2015 in the lab. He supported me like few people so far. He was genuine and generous. He was a giant.
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@loukesio
Loukas Theodosiou
5 years
The hatred that people express to Greta tells more about them than about Greta. Go Greta go @GretaThunberg
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Loukas Theodosiou
2 years
Welcome to Plön @EvolvedBiofilm !
@EvolvedBiofilm
Akos T. Kovacs
2 years
Morning run in Plön along Höftsee, Behler See, Schöhsee, Großer Plöner See, and Edebergsee - looking forward to the #MEEmeeting at the MPI Plön later today
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@loukesio
Loukas Theodosiou
7 years
My first paper as a first author was accepted by Pro B :) :)
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@loukesio
Loukas Theodosiou
2 years
Amigas, I am going to Cologne at the @mpipz_cologne
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Loukas Theodosiou
3 years
Dear Twitter friends, Do you know if there is any up to date database which contains the Virus RefSeq accession number and the bacteriophage lifecycle (virulent or temperate)? @phagedirectory @phagesdb @Phages_fr Please RT 😀
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@loukesio
Loukas Theodosiou
5 years
When I was young and I could run 24 chemostats simultaneously😨. Only the 16 could fit in one pic.
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@loukesio
Loukas Theodosiou
2 years
Thank you so much, Vivek, for accepting our invitation. It is such a pleasure for all of us to have you around!
@vivek_mutalik
Vivek Mutalik
2 years
Fueled by one of the best science workshops on microbial ecology & evolution I have attended in recent memory!! All because of a group of awesome researchers who put it together 👉🏽 @TanushJagdish @AlitaBurmeister @fatiaysh @andydfarr @loukesio
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Loukas Theodosiou
5 years
One of the biggest mysteries in Daphnia world and evolutionary biology is almost solved. This paper, published by previous supervisor Christoph Haag, sheds light on the genetic basis of the Non-Male Producing (NMP) phenotype in Daphnia sp. High-quality-sci
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Loukas Theodosiou
2 years
The figures from some old papers can have an extra value!
@edelponte
Emerson Del Ponte
2 years
Easy way to extract data from figures using @tpoi #rstats digitize package.
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Loukas Theodosiou
2 years
We are so excited to have you @evokerr ! We are so much looking forward to your talk tonight 😀 !
@evokerr
Benjamin Kerr
2 years
Very excited to be attending the Evolutionary Dynamics & Processes meeting in lovely Plön this week. Many thanks to the organizers @AlitaBurmeister , @fatiaysh , @TanushJagdish , @andydfarr , @loukesio , & Clara Moreno-Fenoll for putting this wonderful MPI meeting together!
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Loukas Theodosiou
5 years
I was always so keen to understand the core of the controversy between Fisher and Wright. I am so happy that I read the chapter from Steven A. Frank . To motivate you to have a look at it I made this infographic.
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@loukesio
Loukas Theodosiou
4 years
Day 4/7 #PhotosOfMyLife . There are rules (no people, no explanations). Invited by @RaineyLab . Today I invite @DevikaBhave @anu_evobio
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Loukas Theodosiou
3 years
@jandraRV @big_data_kane @DrKLHillesland @MikeJayMcD @oxcordero @saramitri @TimBarraclough9 @RaineyLab @GobernaMarta @LizScurious Ivana Gudelj, Jennifer Martiny, Maria R. Gomez and Seppe Kuehn, we are looking forward to having you in the Communities and Coevolution workshop.
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@loukesio
Loukas Theodosiou
2 years
We have received an unbelievable amount of applications, and we'll need a few more days to reach the final decision. By the end of next week, you'll hear back from us. The high quality of the applications has made the selection process a very tough job, which is great 😀😀.
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@loukesio
Loukas Theodosiou
4 years
It was a pleasure listening @cratzke1 today in a special seminar at our @MPI_EvolBio talking about microbial communities. Thank you, Christoph, for the fascinating talk, and we hope to see you soon!
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Loukas Theodosiou
5 years
#WorldBookDay Favourite book at the moment. It's impressive how much ancient Greek philosophers have contributed to evolutionary thinking.
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Loukas Theodosiou
4 months
@vivek_mutalik Thank you so so much Vivek! I could not agree more! I am grateful that I met you during my academic journey ☺️
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Loukas Theodosiou
1 year
Some people seem to know. José said some of them and there are many many more
@IslandGenomics
José Cerca
1 year
No OnE nO kNoWs WhY - Bureaucrats killing science - incentives to be productive and not creative - selection of toxic and/or mediocre individuals for permanent positions - research councils throwing away tons of ideas - environment leading to high rates of depression and anxiety
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Loukas Theodosiou
10 months
This work is fascinating as it starkly illustrates that it's not just the pairwise interactions elucidating why species coexist, but rather the intricate network of interactions!!!
@asanchez_lab
Alvaro Sanchez Lab
10 months
A new paper from our lab is out today after peer review:
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Loukas Theodosiou
5 years
Do a phd with Susan.
@SuseJohnston
Susan Johnston
5 years
Interested in genomics and evolution in wild systems? My lab @EdinburghUni has two PhD Positions starting Autumn 2020 on the @SoaySheep of St Kilda: one on evolution of recombination rates, another on genomics of immune trait variation. Details & links in thread 👇:
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Loukas Theodosiou
6 years
#TalkEvo @schmid_dominik is doing the Kickstart!!!
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Loukas Theodosiou
4 years
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Loukas Theodosiou
1 year
This is the world we live in, and it does not look that it will change soon!
@MarioFeldman9
Mario Feldman
1 year
Paper withdrawn because authors could not pay the OAC. Very sad. Would this also happen in societal journals? I hope not.
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Loukas Theodosiou
6 years
New publication from our lab. Well done Jens, Lutz, Philine and Emre
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@loukesio
Loukas Theodosiou
11 months
@vivek_mutalik Thank you Vivek and for bringing back all these nice memories. I still vividly remember the great time we all had together. Here is a photo of our "short-walk" group. I also have another one to share, featuring a chicken🐔flying by while Will was speaking at the farm @wc_ratcliff
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@loukesio
Loukas Theodosiou
6 years
Inspired by the fantastic talk of @ebmatthews in the #TalkEvo workshop I am going to reread the book of Mark A. McPeek, "Evolutionary Community Ecology", and post in this thread the most exciting parts of the book.
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@loukesio
Loukas Theodosiou
5 years
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Loukas Theodosiou
2 years
Thank you so much, Harmit, for everything! It was an absolute pleasure and honour interacting with you. We all hope that our paths will cross soon again!
@HarmitMalik
Harmit S. Malik
2 years
More pics and showing the amazing athletic talents of @loukesio @KyleJCard
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Loukas Theodosiou
5 years
That's a very cool and well-written paper by Puebla lab. It sheds light on the speciation of the Hamlets. All data is presented so neatly and is well analyzed.
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@loukesio
Loukas Theodosiou
4 years
Last Friday @RaineyLab was lucky to have Seppe Kuehn at the virtual lecture hall of @MPI_EvolBio . Thank you Seppe for this superb talk. We 'll see you next year to the Evolving Microbial Communities workshop. Don't miss the new preprint from Seppe's lab
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@loukesio
Loukas Theodosiou
8 years
Come to see my poster and talk about Eco- Evo dynamics. :) #ISME16
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@loukesio
Loukas Theodosiou
2 years
Let your life change with this!
@GuyProchilo
Dr. Guy Prochilo 🏳️‍🌈
2 years
#Rstats : Copy data from Excel and paste it into R as a dataframe or tibble using datapasta: install.packages("datapasta") -> set a useful keyboard paste shortcut #phdchat
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@loukesio
Loukas Theodosiou
5 years
@NWP_NWMK
Norddeutscher Wissenschaftspreis 2020
5 years
Platz 3 des #NWP2018 : Die (Epi)genetische Architektur des Alterns – eine Mehrgenerationenstudie an Flussseeschwalben : @kieluni ; in Kooperation mit dem Max-Planck-Institut für Evolutionsbiologie Plön und dem Institut für Vogelforschung Der dritte Platz wird mit 50.000 € dotiert
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Loukas Theodosiou
4 months
🏃🏃‍♀️🏃‍♀️💨Run to attend the most amazing meeting in the history of population genomics!!! I can not recommend it enough within this post 🔥
@chiarabatini
Chiara Batini
4 months
#EMBOpopgen is back for its seventh edition, in person 10-16 June 2024 in Castellammare di Stabia (Naples), Italy! ‼️ Registration deadline 16th Feb 2024 - RT please! ‼️ @v_colonna @DrManica @leo_speidel @hunemeier_t @erikgarrison @Loic_Lnlg #EMBOpopgen
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Loukas Theodosiou
1 year
This is very good! Like very very good! #ChatGPT
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@loukesio
Loukas Theodosiou
6 years
Could you imagine doing science in such a beautiful and vibrant place?
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Loukas Theodosiou
2 years
I have been following this work since the very beginning, and I have been super impressed. Such a neat and well-thought work
@fredeBio
Frederic Bertels
2 years
We just submitted our first phage paper to biorxiv (). This was a mammoth effort by Jordan Romeyer Dherbey with help from Lavisha ( @lavisha_parab ) and Jenna ( @gallie_jenna ).
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Loukas Theodosiou
5 years
Holy moly. See how the annual average temperature is changing in Greece (1901 - 2018)! #ShowYourStripes
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