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Yasin Kaya

@ysnky.bsky.social
277 followers 745 following 1 posts

Bioinformatician, PhD | Evolutionary genomics of structural variation and local adaptation in 🌱 Hancock Lab | @mpipz.bsky.social | github.com/yykaya

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Reposted by Yasin Kaya
Angela Hancock @ahancock.bsky.social · 19/06/2026
New paper led by Célia Neto presenting a multiparent intercross population (and trait mapping) from Cape Verde Arabidopsis parents
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Reposted by Yasin Kaya
Eva-Sophie Wallner @eswallner.bsky.social · 27/05/2026
Happy to announce that I have started my own research group at the MPIPZ and that I am looking for a postdoc who would like to investigate Marchantia prothallus development with me! Please spread the word and/or apply if interested :)
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Yasin Kaya @ysnky.bsky.social · 20/01/2026
So grateful to contribute to the #TAIR12 community effort! It was a truly fun and informative journey refining the Arabidopsis thaliana annotation. Looking forward to the release on ENA! 🌱
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Reposted by Yasin Kaya
Rayan Chikhi @rayanchikhi.bsky.social · 03/09/2025
🌎👩‍🔬 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...
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Reposted by Yasin Kaya
Erik Garrison @thinks.lol · 17/07/2025
Postdoc position opening in my group! Research projects: pangenomes for diverse organisms, genome evolution, biocomputing, language models. Please reach out if interested!
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Reposted by Yasin Kaya
Nature Plants @natplants.nature.com · 17/06/2025
Two research highlights and three full papers about NLR-mediated resistance in wheat. Plant research is taking over @natgenet.nature.com !
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Reposted by Yasin Kaya
Heng Li @lh3lh3.bsky.social · 17/06/2025
Preprint on "Improving spliced alignment by modeling splice sites with deep learning". It describes minisplice for modeling splice signals. Minimap2 and miniprot now optionally use the predicted scores to improve spliced alignment. arxiv.org/abs/2506.12986
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Reposted by Yasin Kaya
The Arabidopsis Information Resource (TAIR) @tairnews.bsky.social · 06/05/2025
The TAIR12 genome reannotation has FINALLY been submitted to GenBank. Now we await review and approval. Stay tuned for updates, hopefully within the next month. Thank you to everyone that made this project possible. @labschneeberger.bsky.social @bar-plantbio.bsky.social @sigmafacto.bsky.social
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Reposted by Yasin Kaya
PacBio @pacbio.bsky.social · 28/04/2025
#PacBio expands HiFi methylation detection with new deep learning models from CUHK: 5hmC, hemimethylated 5mC, 6mA - no added cost, no new prep. Hear more at our #AACR25 workshop today. 🔗 bit.ly/4jNCnHT #HiFisequencing
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Reposted by Yasin Kaya
Heng Li @lh3lh3.bsky.social · 18/04/2025
Preprint on hifiasm Nanopore-only assembly. Led by Haoyu Cheng: www.biorxiv.org/content/10.1...
biorxiv.org
Efficient near telomere-to-telomere assembly of Nanopore Simplex reads
Telomere-to-telomere (T2T) assembly is the ultimate goal for de novo genome assembly. Existing algorithms capable of near T2T assembly all require Oxford Nanopore Technologies (ONT) ultra-long reads w...
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Reposted by Yasin Kaya
Max Planck Institute for Plant Breeding Research @mpipz.bsky.social · 17/04/2025
📣Paper Alert! 📣New publication out @nature.com by @labschneeberger.bsky.social @mpipz.bsky.social and @lmumuenchen.bsky.social on the genome reconstruction of historic potato cultivars. 👏🌿🥔 Congratulations! 🥳👏Learn more 👉 bit.ly/3GeGcGX www.nature.com/articles/s41...
nature.com
The phased pan-genome of tetraploid European potato - Nature
A haplotype-resolved pan-genome of autotetraploid European potato founder lines shows high nucleotide diversity at remarkably low haplotype diversity, which is probably the result of hybridization eve...
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Reposted by Yasin Kaya
Max Planck Institute for Plant Breeding Research @mpipz.bsky.social · 21/03/2025
📣Paper Alert! New publication @science.org by the group of @tonnigrubeandersen.bsky.social @mpipz.bsky.social, colleagues @ucph.bsky.social & others on the Casparian strip and its role in metabolic trade between plants & bacteria. 👏Learn more 👉https://bit.ly/4bJe4Yd www.science.org/doi/10.1126/...
science.org
Apoplastic barriers are essential for nodule formation and nitrogen fixation in Lotus japonicus
Establishment of the apoplastic root barrier known as the Casparian strip occurs early in root development. In legumes, this area overlaps with nitrogen-fixing nodule formation, which raises the possi...
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Reposted by Yasin Kaya
CRC TRR 341 "Plant Ecological Genetics" @trr341.bsky.social · 19/03/2025
The #CologneSpringMeeting poster session featured over 70 presentations, fostering a vibrant social and networking atmosphere. Great discussions, new connections, and inspiring science all around!
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Reposted by Yasin Kaya
CRC TRR 341 "Plant Ecological Genetics" @trr341.bsky.social · 18/03/2025
Cologne Spring Meeting starts with “Plant Ecological Genetics: From Lab to Nature and Back” talk by @meauxjuliette.bsky.social Exploring the bridge between laboratory insights and real-world plant ecology. #EcologicalGenetics #PlantScience
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Reposted by Yasin Kaya
CRC TRR 341 "Plant Ecological Genetics" @trr341.bsky.social · 16/03/2025
Join the “PhD Career Perspectives Event” at the Cologne Spring Meeting 2025, March 17th at 17:00! Speakers: 👩‍🔬 Dr. Dorit Grundewald, Scientific Coordinator, Food Security Network 💡 Christina Kothes M.Sc., Innovation Manager, Institute for Plant Sciences 📍 MTI-Building (44b), Joseph-Stelzmann-Str. 9
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Reposted by Yasin Kaya
Dr. Miles Roberts @milesroberts.bsky.social · 05/03/2025
Our review on k-mers + pop gen is now published! doi.org/10.1093/molb...
doi.org
k-mer-based approaches to bridging pangenomics and population genetics
Abstract. Many commonly studied species now have more than one chromosome-scale genome assembly, revealing a large amount of genetic diversity previously m
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Reposted by Yasin Kaya
Team Thomma @teamthomma.bsky.social · 20/02/2025
Today we celebrate a wide diversity in plant sciences at the Symposium of our institute at @unicologne.bsky.social with support from @ceplas.bsky.social & @trr341.bsky.social #PlantScience
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Reposted by Yasin Kaya
Ian Henderson @hendersi.bsky.social · 18/02/2025
Centrophilic Retrotransposons of Plant Genomes www.annualreviews.org/content/jour... new review @annualreviews.bsky.social from @abousios.bsky.social, Tetsuji Kakutani, and myself on my favourite type of mobile genetic element
annualreviews.org
Centrophilic Retrotransposons of Plant Genomes | Annual Reviews
The centromeres of eukaryotic chromosomes are required to load CENH3/CENP-A variant nucleosomes and the kinetochore complex, which connects to spindle microtubules during cell division. Despite their ...
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Reposted by Yasin Kaya
Angela Hancock @ahancock.bsky.social · 15/02/2025
No job ad yet, but I'll be hiring a postdoc at Purdue in population genetics/quantitative genetics/genomics in plants. DM if you have relevant experience and are potentially interested.
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Max Planck Institute for Plant Breeding Research @mpipz.bsky.social · 10/02/2025
We made it 😀 - excited to share our latest research and engage with this vibrant community here at Bluesky 🌿🪴
Max Planck Institute for Plant Breeding Research
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Nature Plants @natplants.nature.com · 29/01/2025
New Resource: "Transposon proliferation drives genome architecture and regulatory evolution in wild and domesticated peppers" rdcu.be/d7YSt 11 genomes of wild and domesticated pepper: transposable elements have shaped the evolution of genome structure.
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Reposted by Yasin Kaya
Nature Plants @natplants.nature.com · 16/01/2025
New Article: "Convergent reduction of immune receptor repertoires during plant adaptation to diverse special lifestyles and habitats" rdcu.be/d6uFq A survey of plant immune receptor repertoires in 808 angiosperm genomes. #PlantScience
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