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Motivation: RNA design aims to find RNA sequences that fold into a given target secondary structure, a problem also known as RNA inverse folding. However, not all target structures are designable. Recent advances in RNA designability have…

Data Structures and Algorithms · Computer Science 2026-04-28 Tianshuo Zhou , David H. Mathews , Liang Huang

In this work, a graph partitioning problem in a fixed number of connected components is considered. Given an undirected graph with costs on the edges, the problem consists of partitioning the set of nodes into a fixed number of subsets with…

Optimization and Control · Mathematics 2024-11-12 Mishelle Cordero , Andrés Miniguano-Trujillo , Diego Recalde , Ramiro Torres , Polo Vaca

Consider a $q$-ary block code satisfying the property that no $l$-letters long codeword's prefix occurs as a suffix of any codeword for $l$ inside some interval. We determine a general upper bound on the maximum size of these codes and a…

Information Theory · Computer Science 2025-06-04 Lidija Stanovnik

Residuation theory concerns the study of partially ordered algebraic structures, most often monoids, equipped with a weak inverse for the monoidal operator. One of its area of application has been constraint programming, whose key…

Logic in Computer Science · Computer Science 2021-03-12 Fabio Gadducci , Francesco Santini

Inspired by prior work by Tian and by Cao and Xu, this paper presents an efficient computer-aided framework to characterize the fundamental limits of coded caching systems under the constraint of linear coding. The proposed framework…

Information Theory · Computer Science 2025-11-26 Niccolò Brembilla , Yinbin Ma , Pietro Belotti , Federico Malucelli , Daniela Tuninetti

Wall-clock-time is minimized for a solution to a linear-program with block-diagonal-structure, by decomposing the linear-program into as many small-sized subproblems as possible, each block resulting in a separate subproblem, when the…

Discrete Mathematics · Computer Science 2015-08-11 Deepak Ponvel Chermakani

The paper is devoted to the problem of erasure coding in distributed storage. We consider a model of storage that assumes that nodes are organized into equally sized groups, called racks, that within each group the nodes can communicate…

Information Theory · Computer Science 2019-01-15 Zitan Chen , Alexander Barg

To solve the access-balancing problem in distributed storage systems, we introduce a new combinatorial model, called MinVar model for fractional repetition (FR) codes. Since FR codes are based on graphs or set systems, our MinVar model is…

Information Theory · Computer Science 2020-11-25 Wenjun Yu , Xiande Zhang , Gennian Ge

Symbolic regression that aims to detect underlying data-driven models has become increasingly important for industrial data analysis. For most existing algorithms such as genetic programming (GP), the convergence speed might be too slow for…

Neural and Evolutionary Computing · Computer Science 2017-10-31 Chen Chen , Changtong Luo , Zonglin Jiang

Design matrices are sparse matrices in which the supports of different columns intersect in a few positions. Such matrices come up naturally when studying problems involving point sets with many collinear triples. In this work we consider…

Combinatorics · Mathematics 2018-03-13 Zeev Dvir , Ankit Garg , Rafael Oliveira , József Solymosi

A reconstruction problem of words from scattered factors asks for the minimal information, like multisets of scattered factors of a given length or the number of occurrences of scattered factors from a given set, necessary to uniquely…

Formal Languages and Automata Theory · Computer Science 2020-03-17 Pamela Fleischmann , Marie Lejeune , Florin Manea , Dirk Nowotka , Michel Rigo

This paper gives a construction of group divisible designs on the binary extension fields with block sizes 3, 4, 5, 6, and 7, respectively, which is motivated from the decoding of binary quadratic residue codes. A conjecture is proposed for…

Combinatorics · Mathematics 2017-01-02 Chong-Dao Lee , Yaotsu Chang , Chia-an Liu

A blocker of $123$-avoiding permutation matrices refers to the set of zeros contained within an $n\times n$ $123$-forcing matrix. Recently, Brualdi and Cao provided a characterization of all minimal blockers, which are blockers with a…

Combinatorics · Mathematics 2023-09-12 Megan Bennett , Lei Cao

This paper focuses on error-correcting codes that can handle a predefined set of specific error patterns. The need for such codes arises in many settings of practical interest, including wireless communication and flash memory systems. In…

Information Theory · Computer Science 2021-02-05 Mira Gonen , Michael Langberg , Alex Sprintson

The well-known approach of Bose, Ray-Chaudhuri and Hocquenghem and its generalization by Hartmann and Tzeng are lower bounds on the minimum distance of simple-root cyclic codes. We generalize these two bounds to the case of repeated-root…

Information Theory · Computer Science 2015-06-10 Alexander Zeh , Markus Ulmschneider

Special functions, coding theory and $t$-designs have close connections and interesting interplay. A standard approach to constructing $t$-designs is the use of linear codes with certain regularity. The Assmus-Mattson Theorem and the…

Information Theory · Computer Science 2019-07-31 Chunming Tang , Cunsheng Ding , Maosheng Xiong

We give a framework for generalizing LDPC code constructions that use Transversal Designs or related structures such as mutually orthogonal Latin squares. Our construction offers a broader range of code lengths and codes rates. Similar…

Combinatorics · Mathematics 2022-05-03 Diane Donovan , Asha Rao , Elif Üsküplü , E. Ş. Yazıcı

Given a matrix $A$ of size $m\times n$, the manuscript describes a algorithm for computing a QR factorization $AP=QR$ where $P$ is a permutation matrix, $Q$ is orthonormal, and $R$ is upper triangular. The algorithm is blocked, to allow it…

Numerical Analysis · Mathematics 2015-06-01 P. G. Martinsson

This paper considers capacity-achieving coding for the clustered form of distributed storage that reflects practical storage networks. To reflect the clustered structure with limited cross-cluster communication bandwidths, nodes in the same…

Information Theory · Computer Science 2019-08-05 Jy-yong Sohn , Beongjun Choi , Jaekyun Moon

This paper studies the theory of linear analog error correction coding. Since classical concepts of minimum Hamming distance and minimum Euclidean distance fail in the analog context, a new metric, termed the "minimum (squared Euclidean)…

Information Theory · Computer Science 2011-05-10 Kai Xie , Jing , Li
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