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Melike Dönertaş

@mdonertas.bsky.social
1.5K followers 886 following 79 posts

#aging #bioinformatics #microbiome #rstats Group Leader & Faculty @METU-Informatics Institute | Computational Biology & Ageing @iscb & @ekoevoder member donertas-group.github.io

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Melike Dönertaş @mdonertas.bsky.social · 3h
I'll get back to first round of applications soon, if you are interested make sure to submit your interest before Oct 5!
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Melike Dönertaş @mdonertas.bsky.social · 16/09/2026
📢 We are hiring at METU! One postdoctoral researcher (wet lab) and four PhD/MSc students (computational) for our TÜBİTAK 2232-A project on healthy ageing and neuroprotection, expected to start in March 2027. Applications are through: donertas-group.github.io/join_us please share 🙏
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Dmitri Petrov @petrovadmitri.bsky.social · 17/09/2026
We are searching for an Assistant Professor in Evolutionary Biology! Looking for colleagues asking fundamental questions relating to evolutionary processes and drivers of evolutionary patterns. If you think it is you, please do apply! And please repost. facultypositions.stanford.edu/jobs/assista...
facultypositions.stanford.edu
Assistant Professor in Evolutionary Biology - Stanford University, California, United States
The Department of Biology at Stanford University seeks applicants for a tenure-track Assistant Professor in Evolutionary Biology. A successful candidate will conduct research that asks fundamental que...
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Melike Dönertaş @mdonertas.bsky.social · 16/09/2026
📢 We are hiring at METU! One postdoctoral researcher (wet lab) and four PhD/MSc students (computational) for our TÜBİTAK 2232-A project on healthy ageing and neuroprotection, expected to start in March 2027. Applications are through: donertas-group.github.io/join_us please share 🙏
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Melike Dönertaş @mdonertas.bsky.social · 17/07/2026
Super happy to share that I closed the loop and returned where my journey started.. This time as a faculty at METU Informatics Institute. Thanks so much to everyone who supported my journey so far! Looking forward to continue our collaborations & starting new ones 💪🤩
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Melike Dönertaş @mdonertas.bsky.social · 02/07/2026
excited to share our new review on robust microbiome–aging research - with some personal context on why we wrote it 👇 (1/10) febs.onlinelibrary.wiley.com/doi/10.1002/...
febs.onlinelibrary.wiley.com
FEBS Press
The gut microbiome changes with age and associates with age-related morbidity and mortality, establishing it as a potential biomarker and intervention target for ageing. Realising this potential requ....
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Melike Dönertaş @mdonertas.bsky.social · 22/05/2026
Our group has a new home on the web that does the work justice ✨ donertas-group.github.io Huge thanks to Prasoon for building it 🙏
donertas-group.github.io
Dönertas Group
Dönertas Group Website
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Melike Dönertaş @mdonertas.bsky.social · 11/05/2026
Check out our new review on evolutionary genetics of ageing 🔥 rdcu.be/fh3VU @natrevgenet.nature.com @leibnizfli.bsky.social @ihaucl.bsky.social
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Melike Dönertaş @mdonertas.bsky.social · 09/04/2026
Every time a journal makes me convert my .csv/.tsv supplementary files to Excel, a little piece of open science dies🥀 RIP reproducibility, my floating-point precision, and at least a dozen genes that are now formatted as dates.
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Dario Riccardo Valenzano @dvalenzano.bsky.social · 22/03/2026
Aging killifish show systemic inflammation and accumulating DNA damage in progenitor-like immune cells, offering a window into the evolutionarily conserved mechanisms of vertebrate immune aging. Great work from Gabriele, @mdonertas.bsky.social, and the whole team. www.nature.com/articles/s43...
nature.com
Spontaneous aging-associated inflammation and genome instability in the immune system of turquoise killifish - Nature Aging
Turquoise killifish are naturally short-lived vertebrates that serve as a model system for aging. The authors show that killifish exhibit age-related transformation in the immune system, which rapidly...
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Melike Dönertaş @mdonertas.bsky.social · 05/02/2026
maybe now i can finally learn german - just built a telegram bot that pings me every 30min with random prompts to make me speak, tracks my personal errors & resurfaces them until i get it right 3x, has conversation memory, 16k SRS cards & voice support. Hallo, Welt 🇩🇪 👋
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Melike Dönertaş @mdonertas.bsky.social · 22/01/2026
Nature Aging @nataging.nature.com turns 5 and asked ~50 researchers to reflect on the field. I am honored to contribute alongside colleagues whose work has shaped how I think about #aging science. Past, present and future perspectives on the science of aging www.nature.com/articles/s43...
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Melike Dönertaş @mdonertas.bsky.social · 03/01/2026
Super happy to share the first research paper from our group! 🎉 We asked if the transcriptome helps us predict SA-β-gal status using Moiseeva mouse senescence atlas data 🐭 Spoiler: single gene markers don't perform well, ML can make a difference 👇 doi.org/10.64898/202...
doi.org
Integrative transcriptomic identification of cellular senescence beyond marker limitations
Cellular senescence lacks a universal marker and varies across cell types, tissues, and stressors, complicating identification. Using SPiDER SA-β-gal labeled single-cell RNA-seq from regenerating mous...
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Melike Dönertaş @mdonertas.bsky.social · 27/12/2025
Happy to share that this is now out in Microbial Ecology 🥳 Huge thanks to the whole team, especially @sultanova.bsky.social 🙌 link.springer.com/article/10.1... @leibnizfli.bsky.social @uniofeastanglia.bsky.social
link.springer.com
Age-Dependent Gut Microbiota Dynamics and Their Association with Male Life-History Traits in Drosophila melanogaster - Microbial Ecology
Growing evidence suggests that the gut microbiota is closely intertwined with life-history evolution in a wide range of species, including well-studied model organisms like Drosophila melanogaster. Al...
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Wolfgang Huber @wkhuber.bsky.social · 01/12/2025
Join EMBL's Interdisciplinary Postdoc Programme! 3 years funding, self-designed interdisciplinary project co-led between EMBL PI and PI in one of EMBL's actual, prospect or associate member states. In particular: AI&Theory, use mathem. models, physics principles and AI www.embl.org/about/info/p...
embl.org
EIPOD-LinC Fellowship Programme – Postdoctoral Programme
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Melike Dönertaş @mdonertas.bsky.social · 25/10/2025
I hereby declare email bankruptcy. If you’ve written to me in the past months and haven’t heard back — it’s not you, it’s the inbox. I recently discovered that hundreds of messages had been flagged as spam and never reached me. 👇
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Melike Dönertaş @mdonertas.bsky.social · 06/10/2025
#AMC2025 is almost here (Oct 28–29, Jena) and we’ve opened a few more seats! If you work on host-microbiome interactions, aging, or age-related diseases, bring a poster and join this amazing crowd! amc25.leibniz-fli.de/registration/ ✨ Highlights 👇 🧵 (1/4)
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Melike Dönertaş @mdonertas.bsky.social · 19/07/2025
We are in Liverpool for the #ISMBECCB2025! Tayyaba Alvi, Mark Olenik and I will be delivering a tutorial on Mendelian Randomization on the first day of the conference. (1/3)
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Dilek Koptekin @dilekopter.bsky.social · 26/06/2025
Happy to share our new study from my PhD on the spread of farming across Anatolia and into the Aegean and then into Europe. @compevohumang.bsky.social www.science.org/doi/10.1126/... 👇🏽
science.org
Out-of-Anatolia: Cultural and genetic interactions during the Neolithic expansion in the Aegean
West Anatolia has been a crucial yet elusive element in the Neolithic expansion from the Fertile Crescent to Europe. In this work, we describe the changing genetic and cultural landscapes of early Hol...
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Leibniz-Institut für Alternsforschung - Fritz-Lipmann-Institut @leibnizfli.bsky.social · 23/06/2025
📢 REMINDER ‼️ AMC - Abstract submission deadline: June 30, 2025 The Aging and Microbiome Conference 2025 #AMC2025 will take place from October 28-29, 2025 in #Jena. Join us for the latest developments and exciting discussions on #microbiome & #aging. 📅 amc25.leibniz-fli.de/registration/
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Melike Dönertaş @mdonertas.bsky.social · 16/06/2025
📢 Update! The abstract submission deadline for the #AMC2025 Aging and Microbiome Conference has been extended to June 30, 2025! 🔗 amc25.leibniz-fli.de 📌 Jena, Germany 📆 Oct 28-29, 2025
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Melike Dönertaş @mdonertas.bsky.social · 17/06/2025
I'm attending #ISMBECCB2025 in Liverpool, United Kingdom from July 20-24. Who else is going? Register here and don't miss it! invt.io/1bxb8kd9bqu
invt.io
I'm participating the ISMB/ECCB 2025 conference, join me!
Register now
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Melike Dönertaş @mdonertas.bsky.social · 16/06/2025
📢 Update! The abstract submission deadline for the #AMC2025 Aging and Microbiome Conference has been extended to June 30, 2025! 🔗 amc25.leibniz-fli.de 📌 Jena, Germany 📆 Oct 28-29, 2025
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Melike Dönertaş @mdonertas.bsky.social · 07/06/2025
A blood-based epigenetic clock for intrinsic capacity predicts mortality and is associated with clinical, immunological and lifestyle factors - Nature Aging www.nature.com/articles/s43...
nature.com
A blood-based epigenetic clock for intrinsic capacity predicts mortality and is associated with clinical, immunological and lifestyle factors - Nature Aging
Fuentealba and colleagues build and validate a DNA methylation clock of intrinsic capacity (IC) to bridge resource-intensive clinical assessments of IC with molecular readouts of aging, highlighting…
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Melike Dönertaş @mdonertas.bsky.social · 29/05/2025
Abstract submission deadline in two days!!
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Melike Dönertaş @mdonertas.bsky.social · 26/05/2025
Super happy to share our new preprint with Zahida Sultanova and an amazing team! We explored how age-related changes in gut microbiota associate with life history traits - lifespan, reproduction, and performance - in male Drosophila melanogaster. www.biorxiv.org/content/10.1...
biorxiv.org
Age-dependent gut microbiota dynamics and their association with male fitness traits in Drosophila melanogaster
Growing evidence suggests that the gut microbiota plays a key role in shaping life history in a wide range of species, including well-studied model organisms like Drosophila melanogaster. Although rec...
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Melike Dönertaş @mdonertas.bsky.social · 19/05/2025
🚨 Aging and Microbiome Conference 2025 📌 Jena, Germany 📆 October 28-29, 2025 ⏰ Abstract submission deadline: 31.05.2025 ℹ️ amc25.leibniz-fli.de
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Melike Dönertaş @mdonertas.bsky.social · 20/05/2025
First evidence of possible language-like communication in dolphins phys.org/news/2025-05...
phys.org
First evidence of possible language-like communication in dolphins
Researchers at the Woods Hole Oceanographic Institution (WHOI) and partner institutions, including the Brookfield Zoo Chicago's Sarasota Dolphin Research Program (SDRP), are the winners of the…
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Melike Dönertaş @mdonertas.bsky.social · 19/05/2025
🚨 Aging and Microbiome Conference 2025 📌 Jena, Germany 📆 October 28-29, 2025 ⏰ Abstract submission deadline: 31.05.2025 ℹ️ amc25.leibniz-fli.de
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Melike Dönertaş @mdonertas.bsky.social · 14/05/2025
Embryonic macrophages orchestrate niche cell homeostasis for the establishment of the definitive hematopoietic stem cell pool - Nature Communications www.nature.com/articles/s41...
nature.com
Embryonic macrophages orchestrate niche cell homeostasis for the establishment of the definitive hematopoietic stem cell pool - Nature Communications
Haematopoietic stem cells (HSC) are responsible for blood cell generation and reside in the bone marrow. Here, the authors show that macrophages in the bone marrow originate from embryonic or adult…
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Melike Dönertaş @mdonertas.bsky.social · 11/05/2025
Happy to have contributed a chapter to the Encyclopedia of Bioinformatics and Computational Biology (2nd ed.) with Mark Olenik. We explore ML & Omics for predicting health and chronic disease www.sciencedirect.com/science/arti...
sciencedirect.com
Machine Learning and Omic Data for Prediction of Health and Chronic Diseases
Machine learning (ML) combined with diverse omic datasets offers transformative potential for predicting health outcomes and chronic diseases. By leve…
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Melike Dönertaş @mdonertas.bsky.social · 26/03/2025
📢 Super excited to announce the Aging and Microbiome Conference 2025 #AMC2025 in Jena, Germany! Join us on October 28–29 for the latest developments and exciting discussions on #microbiome & #aging 📅 Registrations open March 28 🌐 amc25.leibniz-fli.de Please help us spread the word!
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Melike Dönertaş @mdonertas.bsky.social · 18/03/2025
Nature publishing a piece on unpaid academic labor is the best joke I’ve read in a while. www.nature.com/articles/d41...
nature.com
I spent two years organizing an international conference. How do I get compensated for my work?
It can be hard to say no to service requests in academia. Nature’s Careers team sought advice on how to ensure researchers don’t get stuck doing unpaid labour.
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Leibniz-Institut für Alternsforschung - Fritz-Lipmann-Institut @leibnizfli.bsky.social · 17/03/2025
➡ New GPU modules for the laboratory of Dr. Handan Melike Dönertaş With support from Carl-Zeiss-Stiftung, the Dönertas Lab at the @leibnizfli.bsky.social acquired new GPU modules to accelerate large-scale multi-omics data analysis and the development of machine learning and deep learning models.
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Leibniz-Institut für Alternsforschung - Fritz-Lipmann-Institut @leibnizfli.bsky.social · 11/03/2025
The Joachim Herz Foundation has granted two doctoral students at the @leibnizfli.bsky.social an Add-on Fellowship of €12,500 each. 👏 Congratulations to our two doctoral students Katjana Schwab and Ulas Isildak for this additional fellowship! 🎉 Read more: bit.ly/3FlE67S
bit.ly
Two Add-on Fellowships to FLI doctoral students for interdisciplinary biosciences awarded
The Joachim Herz Foundation has granted two doctoral students at the Leibniz Institute on Aging - Fritz Lipmann Institute (FLI) an Add-on Fellowship of €12,500 each. These fellowships support interdis...
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Melike Dönertaş @mdonertas.bsky.social · 15/01/2025
aaand i declare this week "doodle week" came back from holiday to 15+ Doodle invites, filled them all out, but my availability has already changed in just 2 days. means, another round of doodles coming soon... need a more efficient, widespread solution...
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Melike Dönertaş @mdonertas.bsky.social · 14/01/2025
EEBST2025 will be held from July 9 to 11 at Hacettepe University , Ankara. Looking forward! eebst.ekoevo.org
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Melike Dönertaş @mdonertas.bsky.social · 11/01/2025
Meet Willow, our state-of-the-art quantum chip
buff.ly
Meet Willow, our state-of-the-art quantum chip
Our new quantum chip demonstrates error correction and performance that paves the way to a useful, large-scale quantum computer.
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Melike Dönertaş @mdonertas.bsky.social · 09/01/2025
Gene regulation by convergent promoters | Nature Genetics buff.ly/40qrdkP
buff.ly
Gene regulation by convergent promoters - Nature Genetics
Genome-wide analysis and genetic manipulation at loci regulated by p53, E2F4 and RFX7 show that convergent promoters with similar epigenetic features can be co-regulated and simultaneously expressed…
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Melike Dönertaş @mdonertas.bsky.social · 29/11/2024
A panoramic view of cell population dynamics in mammalian aging www.science.org/doi/10.1126/...
science.org
A panoramic view of cell population dynamics in mammalian aging
To elucidate aging-associated cellular population dynamics, we present PanSci, a single-cell transcriptome atlas profiling over 20 million cells from 623 mouse tissues across different life stages, se...
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Steve Thorn @drthorn.bsky.social · 26/11/2024
I’ve been rewriting some of my scripts into Nextflow pipelines 🚀 If you’re new to Nextflow or looking for a great reference, I highly recommend training.nextflow.io. The tutorials are packed with valuable tips to help improve your Nextflow scripts. #Nextflow #Bioinformatics #CodingTips
training.nextflow.io
Nextflow Training - training.nextflow.io
Welcome to the Nextflow community training portal!
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Melike Dönertaş @mdonertas.bsky.social · 26/11/2024
Analysis of lifespan across Diversity Outbred mouse studies identifies multiple longevity-associated loci
biorxiv.org
Analysis of lifespan across Diversity Outbred mouse studies identifies multiple longevity-associated loci
Lifespan is an integrative phenotype whose genetic architecture is likely to highlight multiple processes with high impact on health and aging. Here, we conduct a genetic meta-analysis of longevity…
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Melike Dönertaş @mdonertas.bsky.social · 25/11/2024
Atlas of the plasma proteome in health and disease in 53,026 adults
cell.com
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Melike Dönertaş @mdonertas.bsky.social · 25/11/2024
So many new people on Bluesky! Who should I follow? | R-bloggers
r-bloggers.com
So many new people on Bluesky! Who should I follow?
If there is one development at the moment which I full heartedly enjoy reading about it’s that the remains of what was once called Twitter is seeing a large E𝕏odus. Since a certain billionaire has…
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Panagiotou's lab @mbdlab.bsky.social · 24/11/2024
We are hiring! Several positions are available at our group at LeibnizHKI: - PhD in Microbiome Systems Biology - PhD in Metagenomics - Postdoc in Microbiome research - Team assistant Applications here: lnkd.in/gHnx5_dc If you know anyone interested, please RT!
lnkd.in
LinkedIn
This link will take you to a page that’s not on LinkedIn
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Melike Dönertaş @mdonertas.bsky.social · 18/11/2024
wow, all three together, the dream came true 😝
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Stephen Turner @stephenturner.us · 16/11/2024
Cluster-efficient pangenome graph construction with nf-core/pangenome academic.oup.com/bioinformatics/art… 🧬🖥️🧪 github.com/nf-core/pangenome
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Melike Dönertaş @mdonertas.bsky.social · 20/08/2024
Long-read sequencing transcriptome quantification with lr-kallisto www.biorxiv.org/cont...
biorxiv.org
Long-read sequencing transcriptome quantification with lr-kallisto
RNA abundance quantification has become routine and affordable thanks to high-throughput “short-read” technologies that provide accurate molecule counts at the gene level. Similarly accurate and affordable quantification of definitive full-length, transcript isoforms has remained a stubborn challenge, despite its obvious biological significance across a wide range of problems. “Long-read” sequencing platforms now produce data-types that can, in principle, drive routine definitive isoform quantification. However some particulars of contemporary long-read datatypes, together with isoform complexity and genetic variation, present bioinformatic challenges. We show here, using ONT data, that fast and accurate quantification of long-read data is possible and that it is improved by exome capture. To perform quantifications we developed lr-kallisto, which adapts the kallisto bulk and single-cell RNA-seq quantification methods for long-read technologies. ### Competing Interest Statement The authors have declared no competing interest.
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Melike Dönertaş @mdonertas.bsky.social · 19/08/2024
Why Every Data Scientist Needs the janitor Package | R-bloggers www.r-bloggers.com/2...
r-bloggers.com
Why Every Data Scientist Needs the janitor Package
<div style = "width:60%; display: inline-block; float:left; "> Lessons from Will Hunting and McGayverIn the world of data science, data cleaning is often seen as one of the most time-consuming and least glamorous tasks. Yet, it’s also one of the most critical. Without clean data, even the most sophisticated algorithms and models can produce misleading results. This ...</div><div style = "width: 40%; display: inline-block; float:right;"><img src=' https://medium.com/_/stat?event=post.clientViewed&referrerSource=full_rss&postId=da37e4dcfe24' width = "200" style = "padding: 10px;" /></div><div style="clear: both;"></div>
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Melike Dönertaş @mdonertas.bsky.social · 19/08/2024
The oral–gut microbiome axis in health and disease www.nature.com/artic...
nature.com
The oral–gut microbiome axis in health and disease
Nature Reviews Microbiology - In this Review, Kunath et al. explore the interaction between the oral and the intestinal microbiota and how they influence each other and the development of different...
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