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In a DNA sequence, we have the celebrated Watson-Crick complement $\overline{T}=A$, $\overline{A}=T$, $\overline{C}=G$, and $\overline{G}=C$. Given an integer $m\ge 2$, a secondary structure in a DNA sequence refers to the existence of two…

Information Theory · Computer Science 2023-04-25 Hui Chu , Chen Wang , Yiwei Zhang

We consider integer programming problems in standard form $\max \{c^Tx : Ax = b, \, x\geq 0, \, x \in Z^n\}$ where $A \in Z^{m \times n}$, $b \in Z^m$ and $c \in Z^n$. We show that such an integer program can be solved in time $(m…

Discrete Mathematics · Computer Science 2019-06-10 Friedrich Eisenbrand , Robert Weismantel

Partial rigidity is a quantitative notion of recurrence and provides a global obstruction which prevents the system from being strongly mixing. A dynamical system $(X, \mathcal{X}, \mu, T)$ is partially rigid if there is a constant $\delta…

Dynamical Systems · Mathematics 2024-12-13 Tristán Radić

While achieving a compression ratio of 2.0 bits/base, the new algorithm codes non-N bases in fixed length. It dramatically reduces the time of coding and decoding than previous DNA compression algorithms and some universal compression…

Information Theory · Computer Science 2007-07-16 Jie Liu , Sheng Bao , Zhiqiang Jing , Shi Chen

We show that for a fixed integer $n \neq \pm2$, the congruence $x^2 + nx \pm 1 \equiv 0 \pmod{\alpha}$ has the solution $\beta$ with $0 < \beta < \alpha$ if and only if $\alpha/\beta$ has a continued fraction expansion with sequence of…

Number Theory · Mathematics 2014-12-09 Barry R. Smith

We consider the problem of implementing distributed protocols, despite adversarial channel errors, on synchronous-messaging networks with arbitrary topology. In our first result we show that any $n$-party $T$-round protocol on an undirected…

Data Structures and Algorithms · Computer Science 2015-04-30 William M. Hoza , Leonard J. Schulman

The problem of correcting deletions has received significant attention, partly because of the prevalence of these errors in DNA data storage. In this paper, we study the problem of correcting a consecutive burst of at most $t$ deletions in…

Information Theory · Computer Science 2022-10-24 Shuche Wang , Yuanyuan Tang , Jin Sima , Ryan Gabrys , Farzad Farnoud

We show that for every $\varepsilon>0$ there is an absolute constant $c(\varepsilon)>0$ such that the following is true. The union of any $n$ arithmetic progressions, each of length $n$, with pairwise distinct differences must consist of at…

Combinatorics · Mathematics 2017-05-15 Shoni Gilboa , Rom Pinchasi

There has been significant work recently on integer programs (IPs) $\min\{c^\top x \colon Ax\leq b,\,x\in \mathbb{Z}^n\}$ with a constraint marix $A$ with bounded subdeterminants. This is motivated by a well-known conjecture claiming that,…

Data Structures and Algorithms · Computer Science 2023-02-15 Martin Nägele , Christian Nöbel , Richard Santiago , Rico Zenklusen

We show the existence of variable-rate rate-distortion codes that meet the disortion constraint almost surely and are minimax, i.e., strongly, universal with respect to an unknown source distribution and a distortion measure that is…

Information Theory · Computer Science 2022-11-29 Adeel Mahmood , Aaron B. Wagner

In this paper, we consider a synchronization problem between nodes $A$ and $B$ that are connected through a two--way communication channel. {Node $A$} contains a binary file $X$ of length $n$ and {node $B$} contains a binary file $Y$ that…

Information Theory · Computer Science 2013-08-22 S. M. Sadegh Tabatabaei Yazdi , Lara Dolecek

We devise an analytically simple as well as invertible approximate expression, which describes the relation between the minimum distance of a binary code and the corresponding maximum attainable code-rate. For example, for a rate-(1/4),…

Information Theory · Computer Science 2012-06-29 Yosef Akhtman , Robert G. Maunder , Lajos Hanzo

The effects of the odd-even constraint - as an interleaver design criterion - on the performance of rate-1/2 binary turbo codes are revisited. According to the current understanding, its adoption is favored because it makes the information…

Information Theory · Computer Science 2016-11-15 Konstantinos S. Arkoudogiannis , Christos E. Dimakis , Konstantinos V. Koutsouvelis

Let $W$ be a binary-input memoryless symmetric (BMS) channel with Shannon capacity $I(W)$ and fix any $\alpha > 0$. We construct, for any sufficiently small $\delta > 0$, binary linear codes of block length $O(1/\delta^{2+\alpha})$ and rate…

Information Theory · Computer Science 2022-01-25 Venkatesan Guruswami , Andrii Riazanov , Min Ye

Given $0<\alpha<1$, the Beatty sequence of density $\alpha$ is the sequence $B_{\alpha}=(\lfloor n/\alpha\rfloor)_{n\in\mathbb{N}}$. Beatty's theorem states that if $\alpha,\beta$ are irrational numbers with $\alpha+\beta=1$, then the…

Number Theory · Mathematics 2019-07-23 A. J. Hildebrand , Junxian Li , Xiaomin Li , Yun Xie

While neural networks have achieved high accuracy on standard image classification benchmarks, their accuracy drops to nearly zero in the presence of small adversarial perturbations to test inputs. Defenses based on regularization and…

Machine Learning · Computer Science 2020-11-03 Aditi Raghunathan , Jacob Steinhardt , Percy Liang

We describe the structure of a set of integers $A$ of positive density $\delta$, such that $A+A$ contains no squarefree integer. It turns out that the behaviour changes abruptly at the values $\delta_0=1/4-\frac{2}{\pi^2}=0.0473...$ and…

Number Theory · Mathematics 2011-05-09 Jan-Christoph Schlage-Puchta

For every p in (0,1/2), we give an explicit construction of binary codes of rate approaching "capacity" 1-H(p) that enable reliable communication in the presence of worst-case additive errors}, caused by a channel oblivious to the codeword…

Information Theory · Computer Science 2010-05-04 Venkatesan Guruswami , Adam Smith

We consider the maximum coding rate achievable by uniformly-random codes for the deletion channel. We prove an upper bound that's within 0.1 of the best known lower bounds for all values of the deletion probability $d,$ and much closer for…

Information Theory · Computer Science 2022-10-17 Berivan Isik , Francisco Pernice , Tsachy Weissman

For variable-length coding with an almost-sure distortion constraint, Zhang et al. show that for discrete sources the redundancy is upper bounded by $\log n/n$ and lower bounded (in most cases) by $\log n/(2n)$, ignoring lower order terms.…

Information Theory · Computer Science 2026-01-21 Sharang M. Sriramu , Aaron B. Wagner
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