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The study of genomic variation has provided key insights into the functional role of mutations. Predominantly, studies have focused on single nucleotide variants (SNV), which are relatively easy to detect and can be described with rich…

Genomics · Quantitative Biology 2015-09-04 Daniel R. Zerbino , Tracy Ballinger , Benedict Paten , Glenn Hickey , David Haussler

This paper is devoted to the complexity of the Boolean satisfiability problem. We consider a version of this problem, where the Boolean formula is specified in the conjunctive normal form. We prove an unexpected result that the…

Computational Complexity · Computer Science 2018-07-23 Grigoriy V. Bokov

Work in machine learning and statistics commonly focuses on building models that capture the vast majority of data, possibly ignoring a segment of the population as outliers. However, there does not often exist a good model on the whole…

Machine Learning · Computer Science 2019-07-11 Diego Calderon , Brendan Juba , Sirui Li , Zongyi Li , Lisa Ruan

Local consistency techniques such as k-consistency are a key component of specialised solvers for constraint satisfaction problems. In this paper we show that the power of using k-consistency techniques on a constraint satisfaction problem…

Artificial Intelligence · Computer Science 2014-01-21 Peter Jeavons , Justyna Petke

In multivariate data analysis, it is often important to estimate a graph characterizing dependence among (p) variables. A popular strategy uses the non-zero entries in a (p\times p) covariance or precision matrix, typically requiring…

Methodology · Statistics 2021-07-01 Leo L. Duan , David B. Dunson

We develop honest and locally adaptive confidence bands for probability densities. They provide substantially improved confidence statements in case of inhomogeneous smoothness, and are easily implemented and visualized. The article…

Statistics Theory · Mathematics 2016-11-24 Tim Patschkowski , Angelika Rohde

Recent advances in geometric deep learning and generative modeling have enabled the design of novel proteins with a wide range of desired properties. However, current state-of-the-art approaches are typically restricted to generating…

Biomolecules · Quantitative Biology 2025-08-26 Vsevolod Viliuga , Leif Seute , Nicolas Wolf , Simon Wagner , Arne Elofsson , Jan Stühmer , Frauke Gräter

The boolean satisfiability (SAT) problem asks whether there exists an assignment of boolean values to the variables of an arbitrary boolean formula making the formula evaluate to True. It is well-known that all NP-problems can be coded as…

Machine Learning · Computer Science 2024-10-22 Christopher R. Serrano , Jonathan Gallagher , Kenji Yamada , Alexei Kopylov , Michael A. Warren

Model counting is a fundamental problem that consists of determining the number of satisfying assignments for a given Boolean formula. The weighted variant, which computes the weighted sum of satisfying assignments, has extensive…

Discrete Mathematics · Computer Science 2026-05-08 L. Sunil Chandran , Rishikesh Gajjala , Kuldeep S. Meel

Post-hoc explanations of machine learning models are crucial for people to understand and act on algorithmic predictions. An intriguing class of explanations is through counterfactuals, hypothetical examples that show people how to obtain a…

Machine Learning · Computer Science 2019-12-09 Ramaravind Kommiya Mothilal , Amit Sharma , Chenhao Tan

Local explanation frameworks aim to rationalize particular decisions made by a black-box prediction model. Existing techniques are often restricted to a specific type of predictor or based on input saliency, which may be undesirably…

Machine Learning · Computer Science 2019-02-12 Brandon Carter , Jonas Mueller , Siddhartha Jain , David Gifford

Model counting is the problem of computing the number of satisfying assignments of a given propositional formula. Although exact model counters can be naturally furnished by most of the knowledge compilation (KC) methods, in practice, they…

Artificial Intelligence · Computer Science 2018-05-21 Yong Lai

Counterfactuals are often described as 'retrospective,' focusing on hypothetical alternatives to a realized past. This description relates to an often implicit assumption about the structure and stability of exogenous variables in the…

Artificial Intelligence · Computer Science 2022-12-09 Lucius E. J. Bynum , Joshua R. Loftus , Julia Stoyanovich

Nonlocality and its connections to entanglement are fundamental features of quantum mechanics that have found numerous applications in quantum information science. A set of correlations is said to be nonlocal if it cannot be reproduced by…

Quantum Physics · Physics 2023-11-30 Khashayar Barooti , Alexandru Gheorghiu , Grzegorz Głuch , Marc-Olivier Renou

The Boolean satisfiability problem (SAT) holds a central place in computational complexity theory as the first shown NP-complete problem. Due to this role, SAT is often used as the benchmark for polynomial-time reductions: if a problem can…

Logic in Computer Science · Computer Science 2025-10-21 Yumiko Nishiyama

Quantified Boolean Formula (QBF) is a notoriously hard generalization of \textsc{SAT}, especially from the point of view of parameterized complexity, where the problem remains intractable for most standard parameters. A recent work by…

Computational Complexity · Computer Science 2026-03-11 Andreas Grigorjew , Michael Lampis

Bonnet et al. (FOCS 2020) introduced the graph invariant twin-width and showed that many NP-hard problems are tractable for graphs of bounded twin-width, generalizing similar results for other width measures, including treewidth and…

Data Structures and Algorithms · Computer Science 2022-06-06 Robert Ganian , Filip Pokrývka , André Schidler , Kirill Simonov , Stefan Szeider

We study the computational complexity of explaining preference data through Boolean attribute models (BAMs), motivated by extensive research involving attribute models and their promise in understanding preference structure and enabling…

Multiagent Systems · Computer Science 2025-11-18 Clemens Anzinger , Jiehua Chen , Christian Hatschka , Manuel Sorge , Alexander Temper

In this paper, we analyze 2CNF formulas from the perspectives of Read-Once resolution (ROR) refutation schemes. We focus on two types of ROR refutations, viz., variable-once refutation and clause-once refutation. In the former, each…

Computational Complexity · Computer Science 2016-10-17 Hans Kleine Büning , Piotr Wojciechowski , K. Subramani

In this paper we propose a structural parameter of CNF formulas and use it to identify instances of weighted MaxSAT and #SAT that can be solved in polynomial time. Given a CNF formula we say that a set of clauses is precisely satisfiable if…

Data Structures and Algorithms · Computer Science 2014-02-27 Sigve Hortemo Sæther , Jan Arne Telle , Martin Vatshelle