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Han Mao Kiah

Publications and source records attributed to Han Mao Kiah.

At least 37 records · Page 2Linked to original sources

Evaluating the Gilbert-Varshamov Bound for Constrained Systems

We revisit the well-known Gilbert-Varshamov (GV) bound for constrained systems. In 1991, Kolesnik and Krachkovsky showed that GV bound can be determined via the solution of some optimization problem. Later, Marcus and Roth (1992) modified the optimization problem and improved the GV bound in many instances. In this work, we provide explicit numerical procedures to solve these two optimization problems and hence, compute the bounds. We then show the procedures can be further simplified when we plot the respective curves. In the case where the graph presentation comprise a single state, we provide explicit formulas for both bounds.

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Gilbert-Varshamov Bound for Codes in $L_1$ Metric using Multivariate Analytic Combinatorics

Analytic combinatorics in several variables refers to a suite of tools that provide sharp asymptotic estimates for certain combinatorial quantities. In this paper, we apply these tools to determine the Gilbert--Varshamov lower bound on the rate of optimal codes in $L_1$ metric. Several different code spaces are analyzed, including the simplex and the hypercube in $\mathbb{Z^n}$, all of which are inspired by concrete data storage and transmission models such as the sticky insertion channel, the permutation channel, the adjacent transposition (bit-shift) channel, the multilevel flash memory channel, etc.

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Committed Private Information Retrieval

A private information retrieval (PIR) scheme allows a client to retrieve a data item $x_i$ among $n$ items $x_1,x_2,\ldots,x_n$ from $k$ servers, without revealing what $i$ is even when $t < k$ servers collude and try to learn $i$. Such a PIR scheme is said to be $t$-private. A PIR scheme is $v$-verifiable if the client can verify the correctness of the retrieved $x_i$ even when $v \leq k$ servers collude and try to fool the client by sending manipulated data. Most of the previous works in the literature on PIR assumed that $v < k$, leaving the case of all-colluding servers open. We propose a generic construction that combines a linear map commitment (LMC) and an arbitrary linear PIR scheme to produce a $k$-verifiable PIR scheme, termed a committed PIR scheme. Such a scheme guarantees that even in the worst scenario, when all servers are under the control of an attacker, although the privacy is unavoidably lost, the client won't be fooled into accepting an incorrect $x_i$. We demonstrate the practicality of our proposal by implementing the committed PIR schemes based on the Lai-Malavolta LMC and three well-known PIR schemes using the GMP library and blst, the current fastest C library for elliptic curve pairings.

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Verifiable Coded Computation of Multiple Functions

We consider the problem of evaluating distinct multivariate polynomials over several massive datasets in a distributed computing system with a single master node and multiple worker nodes. We focus on the general case when each multivariate polynomial is evaluated over its corresponding dataset and propose a generalization of the Lagrange Coded Computing framework (Yu et al. 2019) to perform all computations simultaneously while providing robustness against stragglers who do not respond in time, adversarial workers who respond with wrong computation and information-theoretic security of dataset against colluding workers. Our scheme introduces a small computation overhead which results in a reduction in download cost and also offers comparable resistance to stragglers over existing solutions. On top of it, we also propose two verification schemes to detect the presence of adversaries, which leads to incorrect results, without involving additional nodes.

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Average Redundancy of Variable-Length Balancing Schemes à la Knuth

We study and propose schemes that map messages onto constant-weight codewords using variable-length prefixes. We provide polynomial-time computable formulas that estimate the average number of redundant bits incurred by our schemes. In addition to the exact formulas, we also perform an asymptotic analysis and demonstrate that our scheme uses $\frac12 \log n+O(1)$ redundant bits to encode messages into length-$n$ words with weight $(n/2)+{\sf q}$ for constant ${\sf q}$. We also propose schemes that map messages into balanced codebooks with error-correcting capabilities. For such schemes, we provide methods to enumerate the average number of redundant bits.

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Two-Server Private Information Retrieval with Optimized Download Rate and Result Verification

Private Information Retrieval (PIR) schemes allow a client to retrieve any file of interest, while hiding the file identity from the database servers. In contrast to most existing PIR schemes that assume honest-but-curious servers, we study the case of dishonest servers. The latter provide incorrect answers and try to persuade the client to output the wrong result. We introduce several PIR schemes with information-theoretic privacy and result verification for the case of two servers. Security guarantees can be information-theoretical or computational, and the verification keys can be public or private. In this work, our main performance metric is the download rate.

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Deletion Correcting Codes for Efficient DNA Synthesis

The synthesis of DNA strands remains the most costly part of the DNA storage system. Thus, to make DNA storage system more practical, the time and materials used in the synthesis process have to be optimized. We consider the most common type of synthesis process where multiple DNA strands are synthesized in parallel from a common alternating supersequence, one nucleotide at a time. The synthesis time or the number of synthesis cycles is then determined by the length of this common supersequence. In this model, we design quaternary codes that minimizes synthesis time that can correct deletions or insertions, which are the most prevalent types of error in array-based synthesis. We also propose polynomial-time algorithms that encode binary strings into these codes and show that the rate is close to capacity.

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Data-Driven Bee Identification for DNA Strands

We study a data-driven approach to the bee identification problem for DNA strands. The bee-identification problem, introduced by Tandon et al. (2019), requires one to identify $M$ bees, each tagged by a unique barcode, via a set of $M$ noisy measurements. Later, Chrisnata et al. (2022) extended the model to case where one observes $N$ noisy measurements of each bee, and applied the model to address the unordered nature of DNA storage systems. In such systems, a unique address is typically prepended to each DNA data block to form a DNA strand, but the address may possibly be corrupted. While clustering is usually used to identify the address of a DNA strand, this requires $\mathcal{M}^2$ data comparisons (when $\mathcal{M}$ is the number of reads). In contrast, the approach of Chrisnata et al. (2022) avoids data comparisons completely. In this work, we study an intermediate, data-driven approach to this identification task. For the binary erasure channel, we first show that we can almost surely correctly identify all DNA strands under certain mild assumptions. Then we propose a data-driven pruning procedure and demonstrate that on average the procedure uses only a fraction of $\mathcal{M}^2$ data comparisons. Specifically, for $\mathcal{M}= 2^n$ and erasure probability $p$, the expected number of data comparisons performed by the procedure is $κ\mathcal{M}^2$, where $\left(\frac{1+2p-p^2}{2}\right)^n \leq κ\leq \left(\frac{1+p}{2}\right)^n $.

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Explicit Low-Bandwidth Evaluation Schemes for Weighted Sums of Reed-Solomon-Coded Symbols

Motivated by applications in distributed storage, distributed computing, and homomorphic secret sharing, we study communication-efficient schemes for computing linear combinations of coded symbols. Specifically, we design low-bandwidth schemes that evaluate the weighted sum of $\ell$ coded symbols in a codeword $\pmb{c}\in\mathbb{F}^n$, when we are given access to $d$ of the remaining components in $\pmb{c}$. Formally, suppose that $\mathbb{F}$ is a field extension of $\mathbb{B}$ of degree $t$. Let $\pmb{c}$ be a codeword in a Reed-Solomon code of dimension $k$ and our task is to compute the weighted sum of $\ell$ coded symbols. In this paper, for some $s<t$, we provide an explicit scheme that performs this task by downloading $d(t-s)$ sub-symbols in $\mathbb{B}$ from $d$ available nodes, whenever $d\geq \ell|\mathbb{B}|^s-\ell+k$. In many cases, our scheme outperforms previous schemes in the literature. Furthermore, we provide a characterization of evaluation schemes for general linear codes. Then in the special case of Reed-Solomon codes, we use this characterization to derive a lower bound for the evaluation bandwidth.

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$k$-server Byzantine-Resistant PIR Scheme with Optimal Download Rate and Optimal File Size

We consider the problem of designing a Private Information Retrieval (PIR) scheme on $m$ files replicated on $k$ servers that can collude or, even worse, can return incorrect answers. Our goal is to correctly retrieve a specific message while keeping its identity private from the database servers. We consider the asymptotic information-theoretic capacity of this problem defined as the maximum ratio of the number of correctly retrieved symbols to the downloaded one for a large enough number of stored files. We propose an achievable scheme with a small file size and prove that such a file size is minimal for the fixed number of retrieved symbols, solving the problem pointed out by Banawan and Ulukus.

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Repair of Reed-Solomon Codes in the Presence of Erroneous Nodes

We consider the repair scheme of Guruswami-Wootters for the Reed-Solomon code and ask: can we correctly repair a failed node in the presence of erroneous nodes? Equivalently, we consider the collection of downloaded traces as a code and investigate its code-distance properties. We propose three lower bounds on its minimum distance and study methods to efficiently correct errors close to these bounds.

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On the Design of Codes for DNA Computing: Secondary Structure Avoidance Codes

In this work, we investigate a challenging problem, which has been considered to be an important criterion in designing codewords for DNA computing purposes, namely secondary structure avoidance in single-stranded DNA molecules. In short, secondary structure refers to the tendency of a single-stranded DNA sequence to fold back upon itself, thus becoming inactive in the computation process. While some design criteria that reduces the possibility of secondary structure formation has been proposed by Milenkovic and Kashyap (2006), the main contribution of this work is to provide an explicit construction of DNA codes that completely avoid secondary structure of arbitrary stem length. Formally, given codeword length n and arbitrary integer m>=2, we provide efficient methods to construct DNA codes of length n that avoid secondary structure of any stem length more than or equal to m. Particularly, when m = 3, our constructions yield a family of DNA codes of rate 1.3031 bits/nt, while the highest rate found in the prior art was 1.1609 bits/nt. In addition, for m>=3log n + 4, we provide an efficient encoder that incurs only one redundant symbol.

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Efficient Algorithms for the Bee-Identification Problem

The bee-identification problem, formally defined by Tandon, Tan and Varshney (2019), requires the receiver to identify "bees" using a set of unordered noisy measurements. In this previous work, Tandon, Tan, and Varshney studied error exponents and showed that decoding the measurements jointly results in a significantly smaller error exponent. In this work, we study algorithms related to this joint decoder. First, we demonstrate how to perform joint decoding efficiently. By reducing to the problem of finding perfect matching and minimum-cost matchings, we obtain joint decoders that run in time quadratic and cubic in the number of "bees" for the binary erasure (BEC) and binary symmetric channels (BSC), respectively. Next, by studying the matching algorithms in the context of channel coding, we further reduce the running times by using classical tools like peeling decoders and list-decoders. In particular, we show that our identifier algorithms when used with Reed-Muller codes terminate in almost linear and quadratic time for BEC and BSC, respectively. Finally, for explicit codebooks, we study when these joint decoders fail to identify the "bees" correctly. Specifically, we provide practical methods of estimating the probability of erroneous identification for given codebooks.

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Two dimensional RC/Subarray Constrained Codes: Bounded Weight and Almost Balanced Weight

In this work, we study two types of constraints on two-dimensional binary arrays. In particular, given $p,ε>0$, we study (i) The $p$-bounded constraint: a binary vector of size $m$ is said to be $p$-bounded if its weight is at most $pm$, and (ii) The $ε$-balanced constraint: a binary vector of size $m$ is said to be $ε$-balanced if its weight is within $[(0.5-ε)*m,(0.5+ε)*m]$. Such constraints are crucial in several data storage systems, those regard the information data as two-dimensional (2D) instead of one-dimensional (1D), such as the crossbar resistive memory arrays and the holographic data storage. In this work, efficient encoding/decoding algorithms are presented for binary arrays so that the weight constraint (either $p$-bounded constraint or $ε$-balanced constraint) is enforced over every row and every column, regarded as 2D row-column (RC) constrained codes; or over every subarray, regarded as 2D subarray constrained codes. While low-complexity designs have been proposed in the literature, mostly focusing on 2D RC constrained codes where $p = 1/2$ and $ε= 0$, this work provides efficient coding methods that work for both 2D RC constrained codes and 2D subarray constrained codes, and more importantly, the methods are applicable for arbitrary values of $p$ and $ε$. Furthermore, for certain values of $p$ and $ε$, we show that, for sufficiently large array size, there exists linear-time encoding/decoding algorithm that incurs at most one redundant bit.

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Sequence Reconstruction Problem for Deletion Channels: A Complete Asymptotic Solution

Transmit a codeword $x$, that belongs to an $(\ell-1)$-deletion-correcting code of length $n$, over a $t$-deletion channel for some $1\le \ell\le t<n$. Levenshtein, in 2001, proposed the problem of determining $N(n,\ell,t)+1$, the minimum number of distinct channel outputs required to uniquely reconstruct $x$. Prior to this work, $N(n,\ell,t)$ is known only when $\ell\in\{1,2\}$. Here, we provide an asymptotically exact solution for all values of $\ell$ and $t$. Specifically, we show that $N(n,\ell,t)=\binom{2\ell}{\ell}/(t-\ell)! n^{t-\ell} - O(n^{t-\ell-1})$ and in the special instance where $\ell=t$, we show that $N(n,\ell,\ell)=\binom{2\ell}{\ell}$. We also provide a conjecture on the exact value of $N(n,\ell,t)$ for all values of $n$, $\ell$, and $t$.

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Computing Permanents on a Trellis

The problem of computing the permanent of a matrix has attracted interest since the work of Ryser(1963) and Valiant(1979). On the other hand, trellises were extensively studied in coding theory since the 1960s. In this work, we establish a connection between the two domains. We introduce the canonical trellis $T_n$ that represents all permutations, and show that the permanent of a $n$ by $n$ matrix $A$ can be computed as a flow on this trellis. Under certain normalization, the trellis-based method invokes slightly less operations than best known exact methods. Moreover, if $A$ has structure, then $T_n$ becomes amenable to vertex merging, thereby significantly reducing its complexity. - Repeated rows: Suppose $A$ has only $t<n$ distinct rows. The best known method to compute $per(A)$, due to Clifford and Clifford (2020), has complexity $O(n^{t+1})$. Merging vertices in $T_n$, we obtain a reduced trellis that has complexity $O(n^t)$. - Order statistics: Using trellises, we compute the joint distribution of $t$ order statistics of $n$ independent, but not identically distributed, random variables in time $O(n^{t+1})$. Previously, polynomial-time methods were known only when the variables are drawn from two non-identical distributions. - Sparse matrices: Suppose each entry in $A$ is nonzero with probability $d/n$ with $d$ is constant. We show that $T_n$ can be pruned to exponentially fewer vertices, resulting in complexity $O(ϕ^n)$ with $ϕ<2$. - TSP: Intersecting $T_n$ with another trellis that represents walks, we obtain a trellis that represents circular permutations. Using the latter trellis to solve the traveling salesperson problem recovers the well-known Held-Karp algorithm. Notably, in all cases, the reduced trellis are obtained using known techniques in trellis theory. We expect other trellis-theoretic results to apply to other structured matrices.

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Repairing Reed-Solomon Codes via Subspace Polynomials

We propose new repair schemes for Reed-Solomon codes that use subspace polynomials and hence generalize previous works in the literature that employ trace polynomials. The Reed-Solomon codes are over $\mathbb{F}_{q^\ell}$ and have redundancy $r = n-k \geq q^m$, $1\leq m\leq \ell$, where $n$ and $k$ are the code length and dimension, respectively. In particular, for one erasure, we show that our schemes can achieve optimal repair bandwidths whenever $n=q^\ell$ and $r = q^m,$ for all $1 \leq m \leq \ell$. For two erasures, our schemes use the same bandwidth per erasure as the single erasure schemes, for $\ell/m$ is a power of $q$, and for $\ell=q^a$, $m=q^b-1>1$ ($a \geq b \geq 1$), and for $m\geq \ell/2$ when $\ell$ is even and $q$ is a power of two.

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