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Puneeth Deraje

@puneethderaje.bsky.social
193 followers 203 following 4 posts

Mathematics & Evolution! Ph.D. at University of Toronto (EEB Dept) Alumnus IISER Mohali. He/him

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Reposted by Puneeth Deraje
Chris Smith @chriscrsmith.bsky.social · 7h
I'm hiring a postdoc in population and evolutionary genetics at Indiana University Bloomington! We're a computational lab working on spatial demographic inference using genomic data and machine learning. You can apply here: indiana.peopleadmin.com/postings/34508
indiana.peopleadmin.com
Indiana University Academic Positions
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Yun S. Song @yun-s-song.bsky.social · 23/09/2026
Please help spread the word! We are recruiting multiple Postdoctoral Fellows as part of the recently launched Bakar Computational Biomedicine Initiative (BCBI) at UC Berkeley and UCSF. BCBI website: bcbi.berkeley.edu Apply by Nov 1, 2026: berkeley.infoready4.com#freeformComp... (1/n)
bcbi.berkeley.edu
Bakar Computational Biomedicine Initiative | Bakar Computational Biomedicine Initiative
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Graham Coop @gcbias.bsky.social · 10/09/2026
I’m looking to hire an NIH funded postdoc to join our lab here at Davis (please RT). Ongoing areas of interest include: 1) polygenic signals of selection from time series, ARGs, GWAS, etc 2) The interpretation of GWAS, polygenic scores, & sources of confounding
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 12/08/2026
I am excited to announce a job for an Asst Prof in Plant Evolution in the dept. of Evolution and Ecology at @ucdavis.bsky.social. We're looking broadly, from macro (speciation, comparative genomics, evo-devo) to micro (pop biology, adaptive evolution, evo-eco). recruit.ucdavis.edu/JPF07777
recruit.ucdavis.edu
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Mark Hibbins, Great Lakes Swashbuckler @rejectresubmit.bsky.social · 10/08/2026
I'm recruiting a PhD student to work on an NSF-funded project developing new models of trait evolution for phylogenetic comparative methods! Info about the lab here: mhibbins.github.io Applications to our grad program are due December 1. Please share!
mhibbins.github.io
Hibbins Lab
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Lior Pachter @lpachter.bsky.social · 05/08/2026
Proof of the 40-year old Bandelt-Dress conjecture on the maximum quartet distance between phylogenetic trees (and an interesting connection to independence testing). arxiv.org/abs/2608.03542
arxiv.org
The maximum quartet distance between phylogenetic trees
The quartet distance counts the four-leaf subsets on which two binary phylogenetic trees display different topologies. We prove that its maximum over trees on $n$ leaves is $(2/3+o(1))\binom{n}{4}$, r...
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bob week @bweek.bsky.social · 23/07/2026
hey mmee people ( and everyone else ) look at my slides on a stochastic eco-evo modelling framework and the response of G-matrices to selection ! im the second talk in the trait evo session (G04) come by (ㅅ´ ˘ `) bobweek.github.io/talks/driftG...
bobweek.github.io
The Response of \bf G-matrices to Random Genetic Drift
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Hanbin Lee @epigenci.bsky.social · 15/07/2026
How should we apply linear mixed models to populations under stabilizing selection? The first paper I wrote with my grad school advisor is published in Genetics. academic.oup.com/genetics/adv... 1/n
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Molecular Biology and Evolution @molbioevol.bsky.social · 08/07/2026
Yuan, @bmsacchi.bsky.social Choudhury @johnstinchcombe.bsky.social & @stepheniwright.bsky.social highlight the use of eQTLs to investigate selection on gene expression and the evolution of conflict between sexes and life stages in dioecious species. 🔗 doi.org/10.1093/molbev/msag151 #societyjournal
doi.org
Cis-regulation of gene expression between sexes and life stages in Rumex hastatulus
Abstract. The potential for conflict between sexes and life stages while sharing predominantly the same genome has important evolutionary consequences. In
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SMTPB @smtpb.bsky.social · 30/06/2026
The first articles for the new society-owned journal Population Biology Modeling & Theory are underway! We're accepting research articles and beyond - get in touch with us to discuss your ideas for submissions. pbmt.journals.sup.org/index.php/pbmt
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Kayla King, Ph.D. @kayla-king.bsky.social · 24/06/2026
Evolutionary rescue in a phage community! New paper from former PhD student, Sam Greenrod, with brilliant colleague @craigmaclean.bsky.social : academic.oup.com/ismej/advanc...
academic.oup.com
Rapid adaptation accelerates competitive suppression in a parasite community
Abstract. Environmental stress leads to changes in community composition by altering competitive hierarchies and pushing taxa towards extinction. Parasites
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Tracy Heath @trayc7.bsky.social · 23/06/2026
I’m recruiting a PhD student to join our lab in the fall of 2027. If you’re excited about phylogenetics, comp bio, paleobiology, stats theory, macroevolution, etc. please get in touch! Folks at #Evol2026, you can talk to @brpetrucci.bsky.social & @sigournie.bsky.social to learn more about our lab
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The Society of Systematic Biologists @systbiol.bsky.social · 23/06/2026
SSB Prez Tracy Heath announcing awards! 2026 Ernst Mayr Award goes to Dr. Rowan French​ for the talk Function and macroevolution of exaggerated male antennae in longhorned beetles Watch the Mayr talks from virtual #evol2026 on YouTube: youtu.be/QMiKMC9ctjw?...
Dr. Rowan French Smiling in front of a colorful tapestry
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Takuji Usui | 薄井拓路 @usuitakuji.bsky.social · 20/06/2026
For colonization success, should hosts 🌱 and microbes 🦠 travel alone, together, or swap partners along the way? Excited to share a new paper with Jerry Yu and @mfrederickson.bsky.social in which we test how microbial partners alter plant performance upon natural introductions: tinyurl.com/8u4268n6
nph.onlinelibrary.wiley.com
For colonization success, should hosts and microbes travel alone, together, or swap partners along the way?
Experimental co-introduction of duckweeds (Lemna japonica) and their microbiome in a common pond.
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bob week @bweek.bsky.social · 13/06/2026
𝚒 𝚖𝚊𝚍𝚎 𝚜𝚘𝚖𝚎 𝚜𝚕𝚒𝚍𝚎𝚣 𝚝𝚘 𝚙𝚛𝚎𝚜𝚎𝚗𝚝 𝚗𝚎𝚠 𝚛𝚎𝚜𝚞𝚕𝚝 𝚘𝚗 𝚑𝚘𝚠 𝚍𝚛𝚒𝚏𝚝 𝚊𝚕𝚝𝚎𝚛𝚜 𝐆-𝚖𝚊𝚝𝚛𝚒𝚡 𝚘𝚛𝚒𝚎𝚗𝚝𝚊𝚝𝚒𝚘𝚗 𝚊𝚗𝚍 𝚠𝚑𝚢 𝚝𝚑𝚒𝚜 𝚖𝚊𝚝𝚝𝚎𝚛𝚜 𝚏𝚘𝚛 𝚎𝚟𝚘𝚕𝚞𝚝𝚒𝚘𝚗𝚊𝚛𝚢 𝚝𝚑𝚒𝚗𝚔𝚒𝚗𝚐 ;-; 𝚌𝚑𝚎𝚌𝚔 𝚞𝚖 𝚘𝚞𝚝 ⋆˚꩜。 bobweek.github.io/talks/driftG...
bobweek.github.io
The Response of Genetic Correlations to Drift
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Jitka Polechová @polejit.bsky.social · 12/06/2026
Are you looking for a PhD on the intersection between evolutionary and ecological theory? Join us @univie. Fully funded PhD position in fundamental eco-evolutionary theory, open to international students. Apply by 13.7.2026: ecoevo.owlstown.net/search Reposting appreciated. #evolbio #evoeco #ecology
ecoevo.owlstown.net
Jitka's EcoEvo Lab - Jobs
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Takuji Usui | 薄井拓路 @usuitakuji.bsky.social · 04/06/2026
Excited to share our new paper in which we test how competition alters adaptation at a warming range edge @science.org We find that competition can increase adaptation to warming when there is a shared evolutionary response to both biotic and abiotic drivers of selection: tinyurl.com/3j8s9t8b
science.org
Competition enables rapid adaptation to a warming range edge in a model plant community
Most predictions of whether populations will adapt to warming range edges ignore species interactions. We experimentally tested whether range-edge populations can adapt to warming within a competitive...
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Jitka Polechová @polejit.bsky.social · 08/05/2026
New #ecoevo paper @pnas.org: Evolution of species’ range and niche in changing environments. I show that feedback between evolutionary and population dynamics can create a tipping point where genetic variance erodes, and species’ ranges contract or fragment www.pnas.org/doi/10.1073/... #popgen 🧬🧪 🌎
Drawing shows a group of chimeric species at the center, from which three spirals of diversity loss lead to a single form: a bird, a fish, or a fox. Image credit: Tereza Nekovarova.
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James T. Stroud @jameststroud.bsky.social · 21/04/2026
Excited to visit UToronto this week for the famous Atwood Symposium! 🦎🦎🦎
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Mark Hibbins, Great Lakes Swashbuckler @rejectresubmit.bsky.social · 17/04/2026
I'm hiring a postdoc (start date flexible) and a PhD student (for Fall 2027) to work in any area of computational phylogenetics! More info here: mhibbins.github.io I will be attending both PEQG and Evolution in June, so please reach out if you want to chat at these meetings!
mhibbins.github.io
Hibbins Lab
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Atwood 2026 @eebatwood.bsky.social · 06/04/2026
Atwood 2026 is just around the corner! 🕺💃 The schedule will be released soon, but there will be an incredible lineup of talks from students, postdocs, faculty, and invited speakers. 😎 The artwork this year was made by the wonderful Martin Henry, Michelle Liu, & Youngseo Jeong.
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S Otto @sarperotto.bsky.social · 31/03/2026
Insightful summary of an extraordinary person being extraordinarily fired: "you don't silence a woman of color who raised concerns about racism by silencing her...The fingerprints are distributed perfectly across the system." www.linkedin.com/pulse/uclas-...
linkedin.com
UCLA's Most Decorated Ecologist Just Got Fired : Here's the sequence
In January of 2025, at the ICTP ICTS winter school at NCBS, Priyanga Amarasekare offered to take me and a few other students out for my birthday. She didn't have to do that.
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Chris Klausmeier @chrisklausmeier.bsky.social · 17/03/2026
🚨 SMTPBconnect Event: Linking Theory and Practice in Eco-evolutionary Modelling 😳 Tomorrow (Weds March 18 2-5PM Pacific Time, Thurs March 19 8-11AM Australian Eastern Time) 🤠 Sponsored by @smtpb.bsky.social, hosted by Maria Kleshnina smtpb.org/event-6562940
smtpb.org
Society for Modeling and Theory in Population Biology - Linking Theory and Practice in Eco-evolutionary Modelling
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American Naturalist / ASN 🐌 @asn-amnat.bsky.social · 12/03/2026
Evolution is faster with stronger selection, but this may come with a demographic cost. Xu & Osmond characterized conditions when the chance of evolutionary rescue increases with the strength of selection across different scenarios. Read now ahead of print! www.journals.uchicago.edu/doi/10.1086/...
The American Naturalist classic cover
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Sohini Ramachandran @sramach.bsky.social · 05/03/2026
If you research or are simply interested in human genetic variation, ancient and modern, read my and Noah Rosenberg's latest in GENETICS academic.oup.com/genetics/art... 1/2
academic.oup.com
Reflections on the Human Genome Diversity Project: a conversation with Marcus W. Feldman, Henry T. Greely, and Mary-Claire King
Abstract. The Human Genome Diversity Project (HGDP) began in 1991 as an initiative to study genetic variation from human populations worldwide. In 2002, th
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Puneeth Deraje @puneethderaje.bsky.social · 11/02/2026
Check out this comprehensive review of models in evolutionary rescue as well as connections with empirical work! It was fun to be a (small) part of this cool group led by Matt and Hildegard!
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Fishers Fishes @fishersfishes.bsky.social · 09/02/2026
Talk alert! Third talk in the series "Applications of Network Science"! Featuring Guim Aguadé-Gorgorió, a Post-Doctoral fellow at ISEM. Guim will be covering minimal models of co-existence in complex ecology! 🗓️ Feb 9, 2026 | ⏱️ 8:30 PM IST Join at: northeastern.zoom.us/j/9832742702...
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 06/02/2026
New paper! From Sam Snodgrass and @genomeofforrest.bsky.social, w/ @druncie.bsky.social, @gcbias.bsky.social, and a collaboration with Andres Moreno and @santiagogmm.bsky.social. Can we quantify the impact of humans on maize dispersal? Plant yourself in a comfy chair and lend me your ear: 1/10
biorxiv.org
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Fishers Fishes @fishersfishes.bsky.social · 04/02/2026
Talk Alert! Excited to kick off brand new series: Forms and Flows. First talk by Shubham S, a PhD candidate at @ncbsbangalore.bsky.social. He will discuss about a landscape description of the dynamics of Turing patterns. 🗓️ Feb 6, 2026 | ⏰ 20:30 (IST) Join: northeastern.zoom.us/j/9832742702...
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Jeremy Van Cleve @vancleve.theoretical.bio · 21/01/2026
Please join us for a @smtpb.bsky.social panel discussion about publishing theory in biology w/ @joshuasweitz.bsky.social (Co-Chief Editor of J Theor Biol), Mark Lewis (Advising Editor for J Math Biol & Bull Math Biol), and me (Theor Pop Biol) 13 Feb 2026 9:00AM–10:00AM PST smtpb.org/event-6520871
smtpb.org
Society for Modeling and Theory in Population Biology - How the papers are made: look behind the scenes of publishing models and theory in population biology with current journal editors
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EvolDir @evoldir.bsky.social · 26/01/2026
Join the symposium "The genetic basis of evolutionary rescue" at SMBE 2026 in Copenhagen (June 28 - July 2). Submit abstracts by Feb 3. More info: smbe2026.org. Organizers: Matthew Osmond & Hildegard Uecker. #conference
smbe2026.org
Home - SMBE 2026 - Copenhagen Denmark
SMBE 2026 The Annual Meeting of the Society for Molecular Biology & Evolution 28 June – 2 July 2026, Copenhagen General Information Registraion Programme Abstract Submission Latest UPDATE → Abstract submission and Award application is open – See more, submit and apply here. → Registration is open – Go to the registration information and sign up […]
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American Naturalist / ASN 🐌 @asn-amnat.bsky.social · 13/01/2026
ICYMI: Lertzman-Lepofsky et al. find that elevation interacts with deforestation to shape community structure among Anolis lizards and suggest that this interaction is key to understanding community assembly in the Anthropocene. Read now! www.journals.uchicago.edu/doi/abs/10.1...
journals.uchicago.edu
Consequences of Deforestation on Functional Community Structure Reverse at High Elevations | The American Naturalist: Vol 207, No 1
Abstract Functional diversity is expected to decrease following land conversion. Empirically, however, the consequences of such changes are highly variable. One possible explanation is that the magnit...
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American Naturalist / ASN 🐌 @asn-amnat.bsky.social · 24/12/2025
Carlson et al. build a mathematical model considering how genotype-by-environment interactions can maintain variation and parametrize their model to test its applicability to real mutualisms. Read now ahead of print! www.journals.uchicago.edu/doi/10.1086/...
journals.uchicago.edu
How Genotype-by-Environment Interactions Can Maintain Variation in Mutualisms | The American Naturalist
Abstract Coevolution requires reciprocal genotype-by-genotype (G × G) interactions for fitness, which occur when the fitness of a genotype in one species depends on the genotype it interacts with in a...
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Asher Cutter @asherdcutter.bsky.social · 18/12/2025
Calling all Canadian prospective grad students! Domestic PhD & MSc application deadline = Jan 9 for EEB @ U. Toronto! Great community of researchers! Guaranteed funding >$40k/y! Join us! eeb.utoronto.ca/education/gr...
eeb.utoronto.ca
Admissions - Ecology & Evolutionary Biology
Resources For More Information Please contact: grad.eeb@utoronto.ca
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Aaditya Narasimhan @aaditya320.bsky.social · 03/09/2025
A bit late, but really happy to see my first PhD paper out! We studied trait-elevation relationships in multiple traits spanning growth, size (both above and belowground) and leaf economics to understand whether these align at within- and among-species scales. academic.oup.com/evlett/advan...
academic.oup.com
Alignment across taxonomic levels in strategies rather than in traits along elevational gradients
Abstract. Trait variation along environmental gradients can indicate the different strategies that organisms have evolved in response to environmental hete
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Asher Cutter @asherdcutter.bsky.social · 02/12/2025
EEB Postdoctoral Fellowship @ U.Toronto app deadline Jan 15 2026. Opportunity for independent research, encourages collab across labs/disciplines. Lots of great folks to interact with, Come join us! eeb.utoronto.ca/employment-2/
eeb.utoronto.ca
Employment - Ecology & Evolutionary Biology
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Leyan Wang @leyan-wang.bsky.social · 26/11/2025
We are excited to share our recent work on the surprising robustness of Ancestral Recombination Graph (ARG) inference tools to computational phasing errors, now available on BioRxiv: biorxiv.org/content/10.1.... This work is co-advised by @yundeng.bsky.social and Rasmus Nielsen. 1/7
biorxiv.org
Robustness of Ancestral Recombination Graph Inference Tools to Phasing Errors
Ancestral Recombination Graphs (ARGs) are fundamental population genetic structures that encode the genealogical history of a sample of haplotypes along the genome. They have recently received substan...
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EvolDir @evoldir.bsky.social · 25/11/2025
ESEB's Global Evolutionary Biology Initiative invites project applications supporting local evolutionary research networks. Deadline: March 1, 2026. Max funding: €10,000. Apply: office@eseb.org. More … eseb.org/prizes-funding/global-evol….
eseb.org
Events supported by GEBI - ESEB | European Society for Evolutionary Biology
Events supported by GEBI - ESEB | European Society for Evolutionary Biology
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Genetics Society of America @genetics-gsa.bsky.social · 21/11/2025
Latest in #GENETICS: @petrelharp.bsky.social and the team show how non-coalescing haplotypes can be inserted into ancestral recombination graphs (ARGs), resulting in ARGs that are smaller, faster to compute with, and have additional ancestral information. buff.ly/X801LTO
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Sebastian Schreiber @sebastianschreiber.bsky.social · 19/11/2025
Join us for an @smtpb.bsky.social workshop on Modern Coexistence Theory. We'll cover mathematical foundations, the theory of partitioning, and data-based applications. Featuring @swatipatel.bsky.social, Nick Kortessis, & Lauren Shoemaker. Zoom link here: smtpb.org/event-6426026
Poster announcing the workshop.
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MPI for Evolutionary Biology @mpi-evolbio.bsky.social · 14/11/2025
Big cheers from MPI for Evolutionary Biology! 🎉 Our alumna Dr. Christin Nyhoegen wins the KlarText Prize 2025 for her piece “Penicillin and a Small Dose of Mathematics.” She shows how math helps improve antibiotic treatments and prevent resistance. 👏 #KlarTextPreis #MPIEvolBio #ScienceCommunication
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Angela Hancock @ahancock.bsky.social · 08/11/2025
I recently moved my lab to Purdue University and am looking for graduate students. We are working at the interface of population genomics, quantitative genetics and functional genomics to understand how plants adapt to extreme environments. Reach out if you would like to discuss potential projects.
PhD advert
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Claudia Bank @cbank.bsky.social · 28/10/2025
We have an open PhD position (application deadline 9 January 2026) in "Theory of fitness landscapes" at @unibe.ch 🤓⛰️📊👩‍💻🎓: banklab.github.io/positions/ Please share widely! #QueerInSTEM #DisabledInSTEM #BlackInSTEM #WomenInSTEM #CarersInSTEM #AcademicSky #HigherED
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ybrandvain.bsky.social @ybrandvain.bsky.social · 24/10/2025
Proud of the latest edition of my free intro biostats book. gitrepo: github.com/ybrandvain/b... book: ybrandvain.github.io/biostats/ Not complete but at a good point to take a break, and I think its quite usable dm me with comments , ideas etc
ybrandvain.github.io
Applied Biostatistics
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Kaleda Denton @kaledadenton.bsky.social · 23/10/2025
Honoured to have done my first ever podcast on The Armen Show! Besides science, math, & academia, we talked about: -LLMs hyping up bad ideas -My 5 foster cats, but whether I'm secretly a dog person -How it would be nice to "skip" & "mute" people in real life 😛 Check it out! 😄 tinyurl.com/yc4hjz2x
tinyurl.com
456: Kaleda Denton | Following the Majority - How Conformity Shapes Culture and AI
In this episode of the Armen Show, Armen Shirvanian interviews Dr. Kaleda Denton, a post-doctoral fellow at the Santa Fe Institute. They discuss the interdisciplinary nature of the Institute, the concept of niche construction in biology, and the dynamics of decision-making, particularly the differences between following the mean versus the majority. The conversation also explores the limitations of game theory, the role of cultural evolution in cooperation, and the impact of AI on accessibility and learning. They delve into the importance of reducing polarization while maintaining diversity in viewpoints, emphasizing the need for mixing and collaboration across different fields and perspectives. In this engaging conversation, Dr. Kaleda Denton and Armen Shirvanian explore a variety of topics including the distinction between majority and mean opinions, the challenges of reading in the digital age, and the implications of large language models (LLMs) on culture. They discuss the importance of communication in society, the influence of close circles versus wider communities in learning, and the role of influential figures in personal development. The conversation also delves into the concept of memes and cultural transmission, the impact of role models on cumulative culture, and the question of human uniqueness in the context of cultural evolution. Check out Kaleda's website at https://www.kaledadenton.com/ 00:00 Introduction to the Podcast and Guest 03:01 The Santa Fe Institute: A Unique Interdisciplinary Environment 05:56 Niche Construction and Extended Evolutionary Synthesis 08:56 Mean vs. Majority: Insights from Research 12:08 Game Theory and Its Limitations 15:03 Cultural Evolution and Cooperation 17:59 The Role of AI in Learning and Accessibility 20:54 Conformity Across Species and LLMs 23:59 The Importance of Current Information 27:03 Final Thoughts on AI and Human Interaction 36:57 The Quirks of AI Hallucinations 38:53 The Evolution of Language Models 39:35 Agency and Individuality in AI Interactions 41:41 The Flattening of Ideas and Language 43:42 Cognitive Offloading and Its Consequences 45:04 Reducing Polarization Through Interaction 48:39 The Importance of Mixing Perspectives 50:02 The Dangers of Majority Influence 53:51 Understanding Mean vs. Majority Opinions 01:04:32 Risks and Opportunities in Cultural Evolution 01:10:02 The Impact of Headlines on News Consumption 01:11:46 The Need for Positive News 01:15:04 Learning from Close Circles vs. Wider Communities 01:17:23 Influential Figures in Personal Development 01:18:44 The Evolution of Human Uniqueness 01:22:38 Understanding Memes and Cultural Transmission 01:23:10 The Multiplicative Costs of Altruism 01:36:09 The Role of Role Models in Cumulative Culture
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Graham Coop @gcbias.bsky.social · 16/10/2025
Congratulations to @jeffgroh.bsky.social on the publication of his paper on an ancient balanced polymorphisms controlling heterodichogamy in two genera of wingnuts. The paper shows the putative turnover & reversal of dominance of a mating type polymorphism www.sciencedirect.com/science/arti...
sciencedirect.com
Distinct haplotypes and reversed dominance at a single-gene balanced polymorphism controlling heterodichogamy in two genera of wingnuts
In the angiosperm mating system of heterodichogamy, two hermaphroditic morphs temporally alternate between male and female flowering phases, promoting…
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Graham Coop @gcbias.bsky.social · 15/10/2025
We're excited to be recruiting an NIH funded postdoc to work in the Coop lab at UC Davis. We're specifically interested in candidates who are want to work at the intersection of human genetics, GWAS, and population genetics modeling. Please RT
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Julia Kreiner @jmkreiner.bsky.social · 06/10/2025
Human-mediated land-use and climate change occur simultaneously, but how do they interact to shape adaptive dynamics? Super excited to share the first paper from the Kreiner lab, led by postdoc extraordinaire @rpineau.bsky.social
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