9 Search Results for "Ban, Frank"

Document
DOI: 10.4230/LIPIcs.CPM.2026.13
Totally Unclustered BWT Images of Any Length over Non-Binary Alphabets

Authors: Gabriele Fici, Estéban Gabory, Giuseppe Romana, and Marinella Sciortino

Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)

Abstract
We prove that for every integer n > 0 and for every alphabet Σ_k of size k ≥ 3, there exist words of length n whose Burrows-Wheeler Transform (BWT) is totally unclustered, i.e., it consists of exactly n runs with no two consecutive equal symbols. These words represent the worst-case behavior of the clustering effect of the BWT. We also establish a lower bound on their number. This contrasts with the binary case, where the existence of infinitely many totally unclustered BWT images is still an open problem, related to Artin’s conjecture on primitive roots.
Cite as

Gabriele Fici, Estéban Gabory, Giuseppe Romana, and Marinella Sciortino. Totally Unclustered BWT Images of Any Length over Non-Binary Alphabets. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 13:1-13:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{fici_et_al:LIPIcs.CPM.2026.13,
  author =	{Fici, Gabriele and Gabory, Est\'{e}ban and Romana, Giuseppe and Sciortino, Marinella},
  title =	{{Totally Unclustered BWT Images of Any Length over Non-Binary Alphabets}},
  booktitle =	{37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
  pages =	{13:1--13:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-420-8},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{369},
  editor =	{Bille, Philip and Prezza, Nicola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.13},
  URN =		{urn:nbn:de:0030-drops-259399},
  doi =		{10.4230/LIPIcs.CPM.2026.13},
  annote =	{Keywords: Burrows-Wheeler Transform, BWT-runs, Repetitiveness Measure, Clustering Effect, Generalized de Bruijn Words}
}
Document
DOI: 10.4230/LIPIcs.ITCS.2026.30
New Bounds for Circular Trace Reconstruction

Authors: Arnav Burudgunte, Paul Valiant, and Hongao Wang

Published in: LIPIcs, Volume 362, 17th Innovations in Theoretical Computer Science Conference (ITCS 2026)

Abstract
The "trace reconstruction" problem asks, given an unknown binary string x and a channel that repeatedly returns "traces" of x with each bit randomly deleted with some probability p, how many traces are needed to recover x? There is an exponential gap between the best known upper and lower bounds for this problem. Many variants of the model have been introduced in hopes of motivating or revealing new approaches to narrow this gap. We study the variant of circular trace reconstruction introduced by Narayanan and Ren (ITCS 2021), in which traces undergo a random cyclic shift in addition to random deletions. We show an improved lower bound of Ω̃(n⁵) for circular trace reconstruction. This contrasts with the (previously) best known lower bounds of Ω̃(n³) in the circular case and Ω̃(n^{3/2}) in the linear case. Our bound shows the indistinguishability of traces from two sparse strings x,y that each have a constant number of nonzeros. Can this technique be extended significantly? How hard is it to reconstruct a sparse string x under a cyclic deletion channel? We resolve these questions by showing, using Fourier techniques, that Õ(n⁶) traces suffice for reconstructing any constant-sparse string in a circular deletion channel, in contrast to the best known upper bound of exp(Õ(n^{1/3})) for general strings in the circular deletion channel. This shows that new algorithms or new lower bounds must focus on non-constant-sparse strings.
Cite as

Arnav Burudgunte, Paul Valiant, and Hongao Wang. New Bounds for Circular Trace Reconstruction. In 17th Innovations in Theoretical Computer Science Conference (ITCS 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 362, pp. 30:1-30:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{burudgunte_et_al:LIPIcs.ITCS.2026.30,
  author =	{Burudgunte, Arnav and Valiant, Paul and Wang, Hongao},
  title =	{{New Bounds for Circular Trace Reconstruction}},
  booktitle =	{17th Innovations in Theoretical Computer Science Conference (ITCS 2026)},
  pages =	{30:1--30:23},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-410-9},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{362},
  editor =	{Saraf, Shubhangi},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2026.30},
  URN =		{urn:nbn:de:0030-drops-253176},
  doi =		{10.4230/LIPIcs.ITCS.2026.30},
  annote =	{Keywords: Trace reconstruction, algorithmic statistics, Fourier analysis}
}
Document
DOI: 10.4230/LIPIcs.ESA.2025.86
New Algorithms for Pigeonhole Equal Subset Sum

Authors: Ce Jin, Ryan Williams, and Stan Zhang

Published in: LIPIcs, Volume 351, 33rd Annual European Symposium on Algorithms (ESA 2025)

Abstract
We study the Pigeonhole Equal Subset Sum problem, which is a total-search variant of the Subset Sum problem introduced by Papadimitriou (1994): we are given a set of n positive integers {w₁,…,w_n} with the additional restriction that ∑_{i=1}^n w_i < 2ⁿ - 1, and want to find two different subsets A,B ⊆ [n] such that ∑_{i∈A} w_i = ∑_{i∈B} w_i. Very recently, Jin and Wu (ICALP 2024) gave a randomized algorithm solving Pigeonhole Equal Subset Sum in O^*(2^{0.4n}) time, beating the classical meet-in-the-middle algorithm with O^*(2^{n/2}) runtime. In this paper, we refine Jin and Wu’s techniques to improve the runtime even further to O^*(2^{n/3}).
Cite as

Ce Jin, Ryan Williams, and Stan Zhang. New Algorithms for Pigeonhole Equal Subset Sum. In 33rd Annual European Symposium on Algorithms (ESA 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 351, pp. 86:1-86:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{jin_et_al:LIPIcs.ESA.2025.86,
  author =	{Jin, Ce and Williams, Ryan and Zhang, Stan},
  title =	{{New Algorithms for Pigeonhole Equal Subset Sum}},
  booktitle =	{33rd Annual European Symposium on Algorithms (ESA 2025)},
  pages =	{86:1--86:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-395-9},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{351},
  editor =	{Benoit, Anne and Kaplan, Haim and Wild, Sebastian and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2025.86},
  URN =		{urn:nbn:de:0030-drops-245541},
  doi =		{10.4230/LIPIcs.ESA.2025.86},
  annote =	{Keywords: pigeonhole principle, subset sums}
}
Document
DOI: 10.4230/LIPIcs.MFCS.2025.48
Generalized De Bruijn Words, Invertible Necklaces, and the Burrows-Wheeler Transform

Authors: Gabriele Fici and Estéban Gabory

Published in: LIPIcs, Volume 345, 50th International Symposium on Mathematical Foundations of Computer Science (MFCS 2025)

Abstract
We define generalized de Bruijn words as those words having a Burrows-Wheeler transform that is a concatenation of permutations of the alphabet. We show that generalized de Bruijn words are in 1-to-1 correspondence with Hamiltonian cycles in the generalized de Bruijn graphs, introduced in the early '80s in the context of network design. When the size of the alphabet is a prime p, we define invertible necklaces as those whose BWT-matrix is non-singular. We show that invertible necklaces of length n correspond to normal bases of the finite field 𝔽_{pⁿ}, and that they form an Abelian group isomorphic to the Reutenauer group RG_pⁿ. Using known results in abstract algebra, we can make a bridge between generalized de Bruijn words and invertible necklaces. In particular, we highlight a correspondence between binary de Bruijn words of order d+1, binary necklaces of length 2^{d} having an odd number of 1’s, invertible BWT matrices of size 2^{d}× 2^{d}, and normal bases of the finite field 𝔽_{2^{2^{d}}}.
Cite as

Gabriele Fici and Estéban Gabory. Generalized De Bruijn Words, Invertible Necklaces, and the Burrows-Wheeler Transform. In 50th International Symposium on Mathematical Foundations of Computer Science (MFCS 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 345, pp. 48:1-48:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{fici_et_al:LIPIcs.MFCS.2025.48,
  author =	{Fici, Gabriele and Gabory, Est\'{e}ban},
  title =	{{Generalized De Bruijn Words, Invertible Necklaces, and the Burrows-Wheeler Transform}},
  booktitle =	{50th International Symposium on Mathematical Foundations of Computer Science (MFCS 2025)},
  pages =	{48:1--48:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-388-1},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{345},
  editor =	{Gawrychowski, Pawe{\l} and Mazowiecki, Filip and Skrzypczak, Micha{\l}},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.MFCS.2025.48},
  URN =		{urn:nbn:de:0030-drops-241555},
  doi =		{10.4230/LIPIcs.MFCS.2025.48},
  annote =	{Keywords: Burrows-Wheeler Transform, Generalized de Bruijn Word, Generalized de Bruijn Graph, Circulant Matrix, Invertible Necklace, Sandpile Group, Reutenauer Group}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2025.3
Near-Optimal Trace Reconstruction for Mildly Separated Strings

Authors: Anders Aamand, Allen Liu, and Shyam Narayanan

Published in: LIPIcs, Volume 334, 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)

Abstract
In the trace reconstruction problem our goal is to learn an unknown string x ∈ {0,1}ⁿ given independent traces of x. A trace is obtained by independently deleting each bit of x with some probability δ and concatenating the remaining bits. It is a major open question whether the trace reconstruction problem can be solved with a polynomial number of traces when the deletion probability δ is constant. The best known upper bound and lower bounds are respectively exp(Õ(n^{1/5})) [Zachary Chase, 2021a] and ̃ Ω(n^{3/2}) [Zachary Chase, 2021b]. Our main result is that if the string x is mildly separated, meaning that the number of zeros between any two ones in x is at least polylog n, and if δ is a sufficiently small constant, then the trace reconstruction problem can be solved with O(n log n) traces and in polynomial time.
Cite as

Anders Aamand, Allen Liu, and Shyam Narayanan. Near-Optimal Trace Reconstruction for Mildly Separated Strings. In 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 334, pp. 3:1-3:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{aamand_et_al:LIPIcs.ICALP.2025.3,
  author =	{Aamand, Anders and Liu, Allen and Narayanan, Shyam},
  title =	{{Near-Optimal Trace Reconstruction for Mildly Separated Strings}},
  booktitle =	{52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)},
  pages =	{3:1--3:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-372-0},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{334},
  editor =	{Censor-Hillel, Keren and Grandoni, Fabrizio and Ouaknine, Jo\"{e}l and Puppis, Gabriele},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2025.3},
  URN =		{urn:nbn:de:0030-drops-233801},
  doi =		{10.4230/LIPIcs.ICALP.2025.3},
  annote =	{Keywords: Trace Reconstruction, deletion channel, sample complexity}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2025.29
Guessing Efficiently for Constrained Subspace Approximation

Authors: Aditya Bhaskara, Sepideh Mahabadi, Madhusudhan Reddy Pittu, Ali Vakilian, and David P. Woodruff

Published in: LIPIcs, Volume 334, 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)

Abstract
In this paper we study constrained subspace approximation problem. Given a set of n points {a₁,…,a_n} in ℝ^d, the goal of the subspace approximation problem is to find a k dimensional subspace that best approximates the input points. More precisely, for a given p ≥ 1, we aim to minimize the pth power of the 𝓁_p norm of the error vector (‖a₁-Pa₁‖,…,‖a_n-Pa_n‖), where P denotes the projection matrix onto the subspace and the norms are Euclidean. In constrained subspace approximation (CSA), we additionally have constraints on the projection matrix P. In its most general form, we require P to belong to a given subset 𝒮 that is described explicitly or implicitly. We introduce a general framework for constrained subspace approximation. Our approach, that we term coreset-guess-solve, yields either (1+ε)-multiplicative or ε-additive approximations for a variety of constraints. We show that it provides new algorithms for partition-constrained subspace approximation with applications to fair subspace approximation, k-means clustering, and projected non-negative matrix factorization, among others. Specifically, while we reconstruct the best known bounds for k-means clustering in Euclidean spaces, we improve the known results for the remainder of the problems.
Cite as

Aditya Bhaskara, Sepideh Mahabadi, Madhusudhan Reddy Pittu, Ali Vakilian, and David P. Woodruff. Guessing Efficiently for Constrained Subspace Approximation. In 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 334, pp. 29:1-29:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{bhaskara_et_al:LIPIcs.ICALP.2025.29,
  author =	{Bhaskara, Aditya and Mahabadi, Sepideh and Pittu, Madhusudhan Reddy and Vakilian, Ali and Woodruff, David P.},
  title =	{{Guessing Efficiently for Constrained Subspace Approximation}},
  booktitle =	{52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)},
  pages =	{29:1--29:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-372-0},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{334},
  editor =	{Censor-Hillel, Keren and Grandoni, Fabrizio and Ouaknine, Jo\"{e}l and Puppis, Gabriele},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2025.29},
  URN =		{urn:nbn:de:0030-drops-234068},
  doi =		{10.4230/LIPIcs.ICALP.2025.29},
  annote =	{Keywords: parameterized complexity, low rank approximation, fairness, non-negative matrix factorization, clustering}
}
Document
Survey
DOI: 10.4230/TGDK.3.1.3
Uncertainty Management in the Construction of Knowledge Graphs: A Survey

Authors: Lucas Jarnac, Yoan Chabot, and Miguel Couceiro

Published in: TGDK, Volume 3, Issue 1 (2025). Transactions on Graph Data and Knowledge, Volume 3, Issue 1

Abstract
Knowledge Graphs (KGs) are a major asset for companies thanks to their great flexibility in data representation and their numerous applications, e.g., vocabulary sharing, Q&A or recommendation systems. To build a KG, it is a common practice to rely on automatic methods for extracting knowledge from various heterogeneous sources. However, in a noisy and uncertain world, knowledge may not be reliable and conflicts between data sources may occur. Integrating unreliable data would directly impact the use of the KG, therefore such conflicts must be resolved. This could be done manually by selecting the best data to integrate. This first approach is highly accurate, but costly and time-consuming. That is why recent efforts focus on automatic approaches, which represent a challenging task since it requires handling the uncertainty of extracted knowledge throughout its integration into the KG. We survey state-of-the-art approaches in this direction and present constructions of both open and enterprise KGs. We then describe different knowledge extraction methods and discuss downstream tasks after knowledge acquisition, including KG completion using embedding models, knowledge alignment, and knowledge fusion in order to address the problem of knowledge uncertainty in KG construction. We conclude with a discussion on the remaining challenges and perspectives when constructing a KG taking into account uncertainty.
Cite as

Lucas Jarnac, Yoan Chabot, and Miguel Couceiro. Uncertainty Management in the Construction of Knowledge Graphs: A Survey. In Transactions on Graph Data and Knowledge (TGDK), Volume 3, Issue 1, pp. 3:1-3:48, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@Article{jarnac_et_al:TGDK.3.1.3,
  author =	{Jarnac, Lucas and Chabot, Yoan and Couceiro, Miguel},
  title =	{{Uncertainty Management in the Construction of Knowledge Graphs: A Survey}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{3:1--3:48},
  ISSN =	{2942-7517},
  year =	{2025},
  volume =	{3},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.3.1.3},
  URN =		{urn:nbn:de:0030-drops-233733},
  doi =		{10.4230/TGDK.3.1.3},
  annote =	{Keywords: Knowledge reconciliation, Uncertainty, Heterogeneous sources, Knowledge graph construction}
}
Document
DOI: 10.4230/LIPIcs.ITCS.2025.14
The More the Merrier! On Total Coding and Lattice Problems and the Complexity of Finding Multicollisions

Authors: Huck Bennett, Surendra Ghentiyala, and Noah Stephens-Davidowitz

Published in: LIPIcs, Volume 325, 16th Innovations in Theoretical Computer Science Conference (ITCS 2025)

Abstract
We show a number of connections between two types of search problems: (1) the problem of finding an L-wise multicollision in the output of a function; and (2) the problem of finding two codewords in a code (or two vectors in a lattice) that are within distance d of each other. Specifically, we study these problems in the total regime, in which L and d are chosen so that such a solution is guaranteed to exist, though it might be hard to find. In more detail, we study the total search problem in which the input is a function 𝒞 : [A] → [B] (represented as a circuit) and the goal is to find L ≤ ⌈A/B⌉ distinct elements x_1,…, x_L ∈ A such that 𝒞(x_1) = ⋯ = 𝒞(x_L). The associated complexity classes Polynomial Multi-Pigeonhole Principle ((A,B)-PMPP^L) consist of all problems that reduce to this problem. We show close connections between (A,B)-PMPP^L and many celebrated upper bounds on the minimum distance of a code or lattice (and on the list-decoding radius). In particular, we show that the associated computational problems (i.e., the problem of finding two distinct codewords or lattice points that are close to each other) are in (A,B)-PMPP^L, with a more-or-less smooth tradeoff between the distance d and the parameters A, B, and L. These connections are particularly rich in the case of codes, in which case we show that multiple incomparable bounds on the minimum distance lie in seemingly incomparable complexity classes. Surprisingly, we also show that the computational problems associated with some bounds on the minimum distance of codes are actually hard for these classes (for codes represented by arbitrary circuits). In fact, we show that finding two vectors within a certain distance d is actually hard for the important (and well-studied) class PWPP = (B²,B)-PMPP² in essentially all parameter regimes for which an efficient algorithm is not known, so that our hardness results are essentially tight. In fact, for some d (depending on the block length, message length, and alphabet size), we obtain both hardness and containment. We therefore completely settle the complexity of this problem for such parameters and add coding problems to the short list of problems known to be complete for PWPP. We also study (A,B)-PMPP^L as an interesting family of complexity classes in its own right, and we uncover a rich structure. Specifically, we use recent techniques from the cryptographic literature on multicollision-resistant hash functions to (1) show inclusions of the form (A,B)-PMPP^L ⊆ (A',B')-PMPP^L' for certain non-trivial parameters; (2) black-box separations between such classes in different parameter regimes; and (3) a non-black-box proof that (A,B)-PMPP^L ∈ FP if (A',B')-PMPP^L' ∈ FP for yet another parameter regime. We also show that (A,B)-PMPP^L lies in the recently introduced complexity class Polynomial Long Choice for some parameters.
Cite as

Huck Bennett, Surendra Ghentiyala, and Noah Stephens-Davidowitz. The More the Merrier! On Total Coding and Lattice Problems and the Complexity of Finding Multicollisions. In 16th Innovations in Theoretical Computer Science Conference (ITCS 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 325, pp. 14:1-14:22, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{bennett_et_al:LIPIcs.ITCS.2025.14,
  author =	{Bennett, Huck and Ghentiyala, Surendra and Stephens-Davidowitz, Noah},
  title =	{{The More the Merrier! On Total Coding and Lattice Problems and the Complexity of Finding Multicollisions}},
  booktitle =	{16th Innovations in Theoretical Computer Science Conference (ITCS 2025)},
  pages =	{14:1--14:22},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-361-4},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{325},
  editor =	{Meka, Raghu},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2025.14},
  URN =		{urn:nbn:de:0030-drops-226424},
  doi =		{10.4230/LIPIcs.ITCS.2025.14},
  annote =	{Keywords: Multicollisions, Error-correcting codes, Lattices}
}
Document
RANDOM
DOI: 10.4230/LIPIcs.APPROX-RANDOM.2019.44
Efficient Average-Case Population Recovery in the Presence of Insertions and Deletions

Authors: Frank Ban, Xi Chen, Rocco A. Servedio, and Sandip Sinha

Published in: LIPIcs, Volume 145, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019)

Abstract
A number of recent works have considered the trace reconstruction problem, in which an unknown source string x in {0,1}^n is transmitted through a probabilistic channel which may randomly delete coordinates or insert random bits, resulting in a trace of x. The goal is to reconstruct the original string x from independent traces of x. While the asymptotically best algorithms known for worst-case strings use exp(O(n^{1/3})) traces [De et al., 2017; Fedor Nazarov and Yuval Peres, 2017], several highly efficient algorithms are known [Yuval Peres and Alex Zhai, 2017; Nina Holden et al., 2018] for the average-case version of the problem, in which the source string x is chosen uniformly at random from {0,1}^n. In this paper we consider a generalization of the above-described average-case trace reconstruction problem, which we call average-case population recovery in the presence of insertions and deletions. In this problem, rather than a single unknown source string there is an unknown distribution over s unknown source strings x^1,...,x^s in {0,1}^n, and each sample given to the algorithm is independently generated by drawing some x^i from this distribution and returning an independent trace of x^i. Building on the results of [Yuval Peres and Alex Zhai, 2017] and [Nina Holden et al., 2018], we give an efficient algorithm for the average-case population recovery problem in the presence of insertions and deletions. For any support size 1 <= s <= exp(Theta(n^{1/3})), for a 1-o(1) fraction of all s-element support sets {x^1,...,x^s} subset {0,1}^n, for every distribution D supported on {x^1,...,x^s}, our algorithm can efficiently recover D up to total variation distance at most epsilon with high probability, given access to independent traces of independent draws from D. The running time of our algorithm is poly(n,s,1/epsilon) and its sample complexity is poly (s,1/epsilon,exp(log^{1/3} n)). This polynomial dependence on the support size s is in sharp contrast with the worst-case version of the problem (when x^1,...,x^s may be any strings in {0,1}^n), in which the sample complexity of the most efficient known algorithm [Frank Ban et al., 2019] is doubly exponential in s.
Cite as

Frank Ban, Xi Chen, Rocco A. Servedio, and Sandip Sinha. Efficient Average-Case Population Recovery in the Presence of Insertions and Deletions. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 145, pp. 44:1-44:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)

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@InProceedings{ban_et_al:LIPIcs.APPROX-RANDOM.2019.44,
  author =	{Ban, Frank and Chen, Xi and Servedio, Rocco A. and Sinha, Sandip},
  title =	{{Efficient Average-Case Population Recovery in the Presence of Insertions and Deletions}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2019)},
  pages =	{44:1--44:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-125-2},
  ISSN =	{1868-8969},
  year =	{2019},
  volume =	{145},
  editor =	{Achlioptas, Dimitris and V\'{e}gh, L\'{a}szl\'{o} A.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX-RANDOM.2019.44},
  URN =		{urn:nbn:de:0030-drops-112592},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2019.44},
  annote =	{Keywords: population recovery, deletion channel, trace reconstruction}
}
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