English
Related papers

Related papers: Category Theory for Genetics

200 papers

This paper presents preliminary work on a general system for integrating dependent types into substructural type systems such as linear logic and linear type theory. Prior work on this front has generally managed to deliver type systems…

Logic in Computer Science · Computer Science 2024-01-30 C. B. Aberlé

Models of dependent type theories are contextual categories with some additional structure. We prove that if a theory $T$ has enough structure, then the category $T\text{-}\mathbf{Mod}$ of its models carries the structure of a model…

Category Theory · Mathematics 2016-07-26 Valery Isaev

We introduce some classes of genuine higher categories in homotopy type theory, defined as well-behaved subcategories of the category of types. We give several examples, and some techniques for showing other things are not examples. While…

Category Theory · Mathematics 2013-11-11 James Cranch

The paradigm of large language models in natural language processing (NLP) has also shown promise in modeling biological languages, including proteins, RNA, and DNA. Both the auto-regressive generation paradigm and evaluation metrics have…

Biomolecules · Quantitative Biology 2025-07-04 Ke Liu , Shuaike Shen , Hao Chen

We discuss some recent developments in the theory of abelian model categories. The emphasis is on the hereditary condition and applications to homotopy categories of chain complexes and stable module categories.

K-Theory and Homology · Mathematics 2015-12-21 James Gillespie

The field of directed type theory seeks to design type theories capable of reasoning synthetically about (higher) categories, by generalizing the symmetric identity types of Martin-L\"of Type Theory to asymmetric hom-types. We articulate…

Category Theory · Mathematics 2025-10-21 Thorsten Altenkirch , Jacob Neumann

Ontologies of research topics are crucial for structuring scientific knowledge, enabling scientists to navigate vast amounts of research, and forming the backbone of intelligent systems such as search engines and recommendation systems.…

Digital Libraries · Computer Science 2025-06-12 Tanay Aggarwal , Angelo Salatino , Francesco Osborne , Enrico Motta

Recent work on predicting category structure with distributional models, using either static word embeddings (Heyman and Heyman, 2019) or contextualized language models (CLMs) (Misra et al., 2021), report low correlations with human…

Machine Learning · Computer Science 2023-02-15 Joseph Renner , Pascal Denis , Rémi Gilleron , Angèle Brunellière

We introduce a special class of real semiflows, which is used to define a general type of evolution semigroups, associated to not necessarily exponentially bounded evolution families. Giving spectral characterizations of the corresponding…

Classical Analysis and ODEs · Mathematics 2023-03-29 Nicolae Lupa , Liviu Horia Popescu

This thesis develops the translation between category theory and computational linguistics as a foundation for natural language processing. The three chapters deal with syntax, semantics and pragmatics. First, string diagrams provide a…

Computation and Language · Computer Science 2022-12-14 Giovanni de Felice

Semi-supervised learning through deep generative models and multi-lingual pretraining techniques have orchestrated tremendous success across different areas of NLP. Nonetheless, their development has happened in isolation, while the…

Computation and Language · Computer Science 2021-01-27 Yi Zhu , Ehsan Shareghi , Yingzhen Li , Roi Reichart , Anna Korhonen

In this survey, we provide an overview of category theory-derived machine learning from four mainstream perspectives: gradient-based learning, probability-based learning, invariance and equivalence-based learning, and topos-based learning.…

Machine Learning · Computer Science 2025-02-04 Yiyang Jia , Guohong Peng , Zheng Yang , Tianhao Chen

We show that the holographic principle in quantum gravity imposes a strong constraint on life. The degrees of freedom of an organism can be estimated according to the theory of Boolean networks, which is constrained by the entropy bound.…

Biological Physics · Physics 2008-06-03 Dirson Jian Li , Shengli Zhang

This article investigates, within the field of neuropsychology of artificial intelligence, the process of categorical segmentation performed by language models. This process involves, across different neural layers, the creation of new…

We attach to each weak model category $\mathcal{M}$ a class of first order formulas about the fibrant objects of $\mathcal{M}$ whose validity is invariant under homotopies and weak equivalences. This is a generalization of the classical…

Category Theory · Mathematics 2025-10-06 César Bardomiano Martínez , Simon Henry

This paper develops a systematic framework for integrating local categories that model logical connectives using higher category theory. By extending these local categories into a unified two-category enriched with natural isomorphisms, the…

General Mathematics · Mathematics 2025-05-19 Barreto Joaquim Reizi

We construct an internal language for cartesian closed bicategories. Precisely, we introduce a type theory modelling the structure of a cartesian closed bicategory and show that its syntactic model satisfies an appropriate universal…

Logic in Computer Science · Computer Science 2019-04-16 Marcelo Fiore , Philip Saville

The role of types in categorical models of meaning is investigated. A general scheme for how typed models of meaning may be used to compare sentences, regardless of their grammatical structure is described, and a toy example is used as an…

Computation and Language · Computer Science 2013-03-14 Peter Hines

Natural Language Generation systems typically have two parts - strategic ('what to say') and tactical ('how to say'). We present our experiments in building an unsupervised corpus-driven template based tactical NLG system. We consider…

Computation and Language · Computer Science 2016-05-25 Nikhilesh Bhatnagar , Radhika Mamidi

In these lecture notes, we give a brief introduction to some elements of category theory. The choice of topics is guided by applications to functional programming. Firstly, we study initial algebras, which provide a mathematical…

Programming Languages · Computer Science 2026-03-09 Benedikt Ahrens , Kobe Wullaert