Tootfinder

Size-structured populations with growth fluctuations: Feynman--Kac formula and decoupling
Ethan Levien, Yair He\"in, Farshid Jafarpour
https://arxiv.org/abs/2508.14680 http…

Size-structured populations with growth fluctuations: Feynman--Kac formula and decoupling
We study a size--structured population model of proliferating cells in which biomass accumulation and binary division occur at rates modulated by fluctuating internal phenotypes. We quantify how fluctuations in internal variables that influence both growth and division shape the distribution of population phenotypes. We derive conditions under which the distributions of size and internal state decouple. Under this decoupling, population--level expectations are obtained from lineage-level expect…

Tracing the Physical Lineage of GRB 211211A: Population Constraints on NS-WD Merger Gamma-Ray Bursts
Xiao-Tian Xu, Bin-Bin Zhang, Yun-Lang Guo, Xiang-Dong Li
https://arxiv.org/abs/2508.10551

Tracing the Physical Lineage of GRB 211211A: Population Constraints on NS-WD Merger Gamma-Ray Bursts
The peculiar long gamma-ray burst (GRB) event, GRB 211211A, is known for it is association with a kilonova feature. Whereas most long GRBs are thought to originate in the core collapse of massive stars, the presence of kilonova suggests GRB 211211A was instead produced by a merger of a compact object binary. Building on the interpretation put forward by \citet{Yang2022Natur.612..232Y}--who argue that GRB 211211A was powered by a massive white-dwarf + neutron-star (WD-NS) merger--we adopt this W…

Learning Lineage Constraints for Data Science Operations
Jinjin Zhao
https://arxiv.org/abs/2506.18252 https://arxiv.org/pdf/2506.1825…

Learning Lineage Constraints for Data Science Operations
Data science workflows often integrate functionalities from a diverse set of libraries and frameworks. Tasks such as debugging require data lineage that crosses library boundaries. The problem is that the way that "lineage" is represented is often intimately tied to particular data models and data manipulation paradigms. Inspired by the use of intermediate representations (IRs) in cross-library performance optimizations, this vision paper proposes a similar architecture for lineage - how do we …

When Ashley Robinson and her mother took DNA tests 10 years ago and began meeting long lost cousins,
they stumbled across a surprising family history that changed their lives.
Robinson’s lineage traced back to the 272 West Africans who were enslaved by Jesuits
and sold to plantation owners in the southern US in 1838.
The sale of the enslaved Africans helped fund Georgetown University,
the oldest Jesuit higher education institution in the US,
and served a…

The dynamical lineage of ultra-diffuse galaxies from TNG50-1
Nilanjana Nandi, Arunima Banerjee
https://arxiv.org/abs/2506.22074 https://

The dynamical lineage of ultra-diffuse galaxies from TNG50-1
The formation and evolution of the ultra-diffuse galaxies (UDGs) continues to remain a puzzle. Similarities and differences in the morphological and the kinematical properties of the UDGs with their possible precursors, namely low-surface brightness (LSBs), L*-type high-surface brightness (HSBs) and dwarf galaxies, may provide crucial constraints on their origin and evolution. We selected samples of UDGs, LSBs, HSBs and dwarfs from TNG50-1. We first obtained a few possible scaling relations inv…

For Eric Allen, the entire Allen family enters the Pro Football Hall of Fame with him https://www.raiders.com/news/for-eric-allen-the-entire-allen-family-enters-the-pro-football-hall-of-fame-with-him

UnMuted: Defining SARS-CoV-2 Lineages According to Temporally Consistent Mutation Clusters in Wastewater Samples
Devan Becker
https://arxiv.org/abs/2508.03508 https://

UnMuted: Defining SARS-CoV-2 Lineages According to Temporally Consistent Mutation Clusters in Wastewater Samples
SARS-CoV-2 lineages are defined according to placement in a phylogenetic tree, but approximated by a list of mutations based on sequences collected from clinical sampling. Wastewater lineage abundance is generally found under the assumption that the mutation frequency is approximately equal to the sum of the abundances of the lineages to which it belongs. By leveraging numerous samples collected over time, I am able to estimate the temporal trends of the abundance of lineages as well as the def…

Ghost in the Machine: Examining the Philosophical Implications of Recursive Algorithms in Artificial Intelligence Systems
Llewellin RG Jegels
https://arxiv.org/abs/2507.01967

Ghost in the Machine: Examining the Philosophical Implications of Recursive Algorithms in Artificial Intelligence Systems
This paper investigates whether contemporary AI architectures employing deep recursion, meta-learning, and self-referential mechanisms provide evidence of machine consciousness. Integrating philosophical history, cognitive science, and AI engineering, it situates recursive algorithms within a lineage spanning Cartesian dualism, Husserlian intentionality, Integrated Information Theory, the Global Workspace model, and enactivist perspectives. The argument proceeds through textual analysis, compar…

The relationship between episcopal genealogy and ideology in the Roman Catholic Church
Marta Baratto, Ivan Casanovas, Ivan Decostanzi, Henrique M. Borges, Samuel Mart\'inez Alcal\'a, Ilaria Stanzani, Alberto Antonioni, Iacopo Iacopini, Michele Re Fiorentin, Eugenio Valdano
https://arxiv.org/abs/2506.22108

The relationship between episcopal genealogy and ideology in the Roman Catholic Church
In this study we investigate how hierarchical structures within the Roman Catholic Church shape the ideological orientation of its leadership. The full episcopal genealogy dataset comprises over 35,000 bishops, each typically consecrated by one principal consecrator and two co-consecrators, forming a dense and historically continuous directed network of episcopal lineage. Within this broader structure, we focus on a dataset of 245 living cardinals to examine whether genealogical proximity corre…

🇺🇦 #NowPlaying on KEXP's #PositiveVibrations
Johnny Osbourne & Aza Lineage:
🎵 Sweet So
#JohnnyOsbourne #AzaLineage
#newRelease 🆕 album
https://vprecordsofficial.bandcamp.com/track/sweet-so-feat-aza-lineage
https://open.spotify.com/track/6F5u42qI3X05sUq96KG7xB

For Eric Allen, the entire Allen family enters the Pro Football Hall of Fame with him https://www.raiders.com/news/for-eric-allen-the-entire-allen-family-enters-the-pro-football-hall-of-fame-with-him

A Scalable Trie Building Algorithm for High-Throughput Phyloanalysis of Wafer-Scale Digital Evolution Experiments
Vivaan Singhvi, Joey Wagner, Emily Dolson, Luis Zaman, Matthew Andres Moreno
https://arxiv.org/abs/2508.15074

A Scalable Trie Building Algorithm for High-Throughput Phyloanalysis of Wafer-Scale Digital Evolution Experiments
Agent-based simulation platforms play a key role in enabling fast-to-run evolution experiments that can be precisely controlled and observed in detail. Availability of high-resolution snapshots of lineage ancestries from digital experiments, in particular, is key to investigations of evolvability and open-ended evolution, as well as in providing a validation testbed for bioinformatics method development. Ongoing advances in AI/ML hardware accelerator devices, such as the 850,000-processor Cereb…

phylo2vec: a library for vector-based phylogenetic tree manipulation
Neil Scheidwasser, Ayush Nag, Matthew J Penn, Anthony MV Jakob, Frederik M{\o}lkj{\ae}r Andersen, Mark P Khurana, Landung Setiawan, Madeline Gordon, David A Duch\^ene, Samir Bhatt
https://arxiv.org/abs/2506.19490

phylo2vec: a library for vector-based phylogenetic tree manipulation
Phylogenetics is a fundamental component of many analysis frameworks in biology as well as linguistics to study the evolutionary relationships of different entities. Recently, the advent of large-scale genomics and the SARS-CoV-2 pandemic has underscored the necessity for phylogenetic software to handle large datasets of genomes or phylogenetic trees. While significant efforts have focused on scaling optimisation algorithms, visualization, and lineage identification, an emerging body of researc…