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Designing protein sequences that fold into a target 3D structure, known as protein inverse folding, is a fundamental challenge in protein engineering. While recent deep learning methods have achieved impressive performance by recovering…

Biomolecules · Quantitative Biology 2025-06-03 Mengdi Liu , Xiaoxue Cheng , Zhangyang Gao , Hong Chang , Cheng Tan , Shiguang Shan , Xilin Chen

Let $x_{1},x_{2},\ldots,x_{n}$ be $n$ numbers, and $y_{1},y_{2},\ldots,y_{n}$ be $n$ further numbers chosen such that all $n^{2}$ pairwise sums $x_{i}+y_{j}$ are nonzero. Consider the $n\times n$-matrix \[ C:=\left(…

Rings and Algebras · Mathematics 2023-05-09 Darij Grinberg

We propose a recursion relation for tree-level scattering amplitudes in three-dimensional Chern-Simons-matter theories. The recursion relation involves a complex deformation of momenta which generalizes the BCFW-deformation used in higher…

High Energy Physics - Theory · Physics 2015-03-17 Dongmin Gang , Yu-tin Huang , Eunkyung Koh , Sangmin Lee , Arthur E. Lipstein

In this article, we construct a generalization of the Blum-Fran\c{c}ois Beta-splitting model for evolutionary trees, which was itself inspired by Aldous' Beta-splitting model on cladograms. The novelty of our approach allows for asymmetric…

Probability · Mathematics 2016-07-04 Raazesh Sainudiin , Amandine Veber

In the gauge-theoretic formulation of gravity the cubic vertex becomes simple enough for some graviton scattering amplitudes to be computed using Berends-Giele-type recursion relations. We present such a computation for the current with all…

High Energy Physics - Theory · Physics 2018-09-05 Gianluca Delfino , Kirill Krasnov , Carlos Scarinci

We explore methods for constructing normal forms of indecomposable quiver representations. The first part of the paper develops homological tools for recursively constructing families of indecomposable representations from indecomposables…

Representation Theory · Mathematics 2019-10-29 Ryan Kinser , Thorsten Weist

A new algorithm to compute the restricted singular value decomposition of dense matrices is presented. Like Zha's method \cite{Zha92}, the new algorithm uses an implicit Kogbetliantz iteration, but with four major innovations. The first…

Numerical Analysis · Mathematics 2020-02-13 Ian N. Zwaan

We comment on old and new results related to the destruction of a random recursive tree (RRT), in which its edges are cut one after the other in a uniform random order. In particular, we study the number of steps needed to isolate or…

Probability · Mathematics 2016-12-28 Erich Baur , Jean Bertoin

We prove several hardness results on folding origami crease patterns. Flat-folding finite crease patterns is fixed-parameter tractable in the ply of the folded pattern (how many layers overlap at any point) and the treewidth of an…

Computational Geometry · Computer Science 2026-01-21 David Eppstein

LRM-Trees are an elegant way to partition a sequence of values into sorted consecutive blocks, and to express the relative position of the first element of each block within a previous block. They were used to encode ordinal trees and to…

Data Structures and Algorithms · Computer Science 2010-09-30 Jérémy Barbay , Johannes Fischer

We introduce a sequent calculus with a simple restriction of Lambek's product rules that precisely captures the classical Tamari order, i.e., the partial order on fully-bracketed words (equivalently, binary trees) induced by a…

Logic in Computer Science · Computer Science 2017-01-12 Noam Zeilberger

We study the problem to provide a triangular form based on implicit differential equations for non-linear multi-input systems with respect to the flatness property. Furthermore, we suggest a constructive method for the transformation of a…

Optimization and Control · Mathematics 2021-07-29 Markus Schöberl , Kurt Schlacher

Net-trees are a general purpose data structure for metric data that have been used to solve a wide range of algorithmic problems. We give a simple randomized algorithm to construct net-trees on doubling metrics using $O(n\log n)$ time in…

Computational Geometry · Computer Science 2018-09-06 Mahmoodreza Jahanseir , Donald R. Sheehy

We present a same-level comparison of the most prominent inversion methods for the reconstruction of the matter density field in the quasi-linear regime from the Ly$\alpha$ forest flux. Moreover, we present a pathway for refining the…

Cosmology and Nongalactic Astrophysics · Physics 2020-08-12 Hendrik Müller , Christoph Behrens , David James Edward Marsh

Solving arithmetic word problems is a cornerstone task in assessing language understanding and reasoning capabilities in NLP systems. Recent works use automatic extraction and ranking of candidate solution equations providing the answer to…

Computation and Language · Computer Science 2021-03-10 Klim Zaporojets , Giannis Bekoulis , Johannes Deleu , Thomas Demeester , Chris Develder

Full binary trees naturally represent commutative non-associative products. There are many important examples of these products: finite-precision floating-point addition and NAND gates, among others. Balance in such a tree is highly…

Discrete Mathematics · Computer Science 2021-08-27 Laura Monroe

We present a simple randomized incremental algorithm for building compressed quadtrees. The resulting algorithm seems to be simpler than previously known algorithms for this task.

Computational Geometry · Computer Science 2009-07-09 Sariel Har-Peled

We study the broadcasting problem when the underlying tree is a random recursive tree. The root of the tree has a random bit value assigned. Every other vertex has the same bit value as its parent with probability $1-q$ and the opposite…

Probability · Mathematics 2021-04-27 Louigi Addario-Berry , Luc Devroye , Gabor Lugosi , Vasiliki Velona

The use of machine learning algorithms in finance, medicine, and criminal justice can deeply impact human lives. As a consequence, research into interpretable machine learning has rapidly grown in an attempt to better control and fix…

Machine Learning · Computer Science 2021-02-02 Thibaut Vidal , Toni Pacheco , Maximilian Schiffer

We give a new, simple construction of the $\alpha$-stable tree for $\alpha \in (1,2]$. We obtain it as the closure of an increasing sequence of $\mathbb{R}$-trees inductively built by gluing together line-segments one by one. The lengths of…

Probability · Mathematics 2014-07-23 Christina Goldschmidt , Bénédicte Haas