Tootfinder

CAKL: Commutative algebra k-mer learning of genomics
Faisal Suwayyid, Yuta Hozumi, Hongsong Feng, Mushal Zia, JunJie Wee, Guo-Wei Wei
https://arxiv.org/abs/2508.09406 https://…

CAKL: Commutative algebra k-mer learning of genomics
Despite the availability of various sequence analysis models, comparative genomic analysis remains a challenge in genomics, genetics, and phylogenetics. Commutative algebra, a fundamental tool in algebraic geometry and number theory, has rarely been used in data and biological sciences. In this study, we introduce commutative algebra k-mer learning (CAKL) as the first-ever nonlinear algebraic framework for analyzing genomic sequences. CAKL bridges between commutative algebra, algebraic topology…

The joys of genetics x US "healthcare" have caught up to me. Been feeling off a while, sweating more than usual doing stuff, more anxious and irritable than usual, odd hot/cold flash issues. I just thought I wasn't getting enough rest, and our diet isn't the best cause we're barely existing as it is.
Last couple weeks I've picked up some UTI, which has exacerbated my earlier symptoms enough we started digging in trying to figure it out. Partner came across Gr…

Recently, a group of world-leading scientists
called for a halt on research to create ‘mirror life’ microbes
amid concerns that the synthetic organisms would present an ‘unprecedented risk’ to life on Earth.
Ian Sample tells Madeleine Finlay about why this work initially seemed exciting for scientists
and what the risks of it continuing could be.
Kate Adamala, assistant professor of genetics, cell biology and development at the University of Minnesota,
d…

Summer picks: what is ‘mirror life’ and why are scientists sounding the alarm?
Podcast Episode · Science Weekly · 08/05/2025 · 18m

Population genetics in complex ecological communities
Shing Yan Li, Zhijie Feng, Akshit Goyal, Pankaj Mehta
https://arxiv.org/abs/2509.23977 https://arxiv.…

Population genetics in complex ecological communities
Ecological interactions can dramatically alter evolutionary outcomes in complex communities. Yet, the classic theoretical results of population genetics (e.g., Kimura's fixation formula) largely ignore ecological effects. Here, we address this shortcoming by using dynamical mean-field theory to integrate ecology into classical population genetics models. We show that ecological interactions between parents and mutants result in frequency-dependent selection and can be characterized by a single …

What Actually Makes You Resilient? https://greatergood.berkeley.edu/article/item/what_actually_makes_you_resilient?utm_source=dlvr.it&utm_content=muz4now/magazine%2…

What Actually Makes You Resilient?
Our skills, genetics, personality, and environment all come together to influence how resilient we are to stress.

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter
Abhinav Singh (Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany, Center for Systems Biology Dresden, Dresden, Germany, School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA), Abhijeet Krishna (Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany, Center for Systems Biology Dresden, Dresden, Germany), Aboutaleb …

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter
We present a topology grounded, multiscale simulation platform for morphogenesis and biological active matter. Morphogenesis and biological active matter represent keystone problems in biology with additional, far-reaching implications across the biomedical sciences. Addressing these problems will require flexible, cross-scale models of tissue shape, development, and dysfunction that can be tuned to understand, model, and predict relevant individual cases. Current approaches to simulating anato…

Gutierrez: 2 Raiders hopefuls carry Silver and Black DNA, but it's their grit, not genetics that matter https://www.raiders.com/news/raiders-family-ties-bo-jackson-shedrick-jackson-rocket-ismail-qadir-ismail-nfl-2025…

Comprehensively stratifying MCIs into distinct risk subtypes based on brain imaging genetics fusion learning
Muheng Shang, Jin Zhang, Junwei Han, Lei Du
https://arxiv.org/abs/2508.18058

Comprehensively stratifying MCIs into distinct risk subtypes based on brain imaging genetics fusion learning
Mild cognitive impairment (MCI) is the prodromal stage of Alzheimer's disease (AD) and thus enrolling MCI subjects to undergo clinical trials is worthwhile. However, MCI groups usually show significant diversity and heterogeneity in the pathology and symptom, which pose great challenge to accurately select appropriate subjects. This study aimed to stratify MCI subjects into distinct subgroups with substantial difference in the risk of transitioning to AD by fusing multimodal brain imaging genet…

Gutierrez: 2 Raiders hopefuls carry Silver and Black DNA, but it's their grit, not genetics that matter https://www.raiders.com/news/raiders-family-ties-bo-jackson-shedrick-jackson-rocket-ismail-qadir-ismail-nfl-2025…

ARGscape: A modular, interactive tool for manipulation of spatiotemporal ancestral recombination graphs
Christopher Talbot, Gideon Bradburd
https://arxiv.org/abs/2510.07255 http…

ARGscape: A modular, interactive tool for manipulation of spatiotemporal ancestral recombination graphs
Ancestral recombination graphs (ARGs) encode the complete genealogical history of a population of recombining lineages. ARGs, and their succinct representation, tree sequences, are increasingly central to modern population genetics methods, yet building an intuition for ARGs remains challenging. This is particularly true when analyzing ancestry in a geographic context, as there is a critical lack of dedicated, interactive tools capable of visualizing ARGs as spatiotemporal objects. To address t…