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The identification of essential proteins in protein-protein interaction networks (PINs) can help to discover drug targets and prevent disease. In order to improve the accuracy of the identification of essential proteins, researchers…

Molecular Networks · Quantitative Biology 2023-12-08 Haoyue Wang , Li Pan , Bo Yang , Junqiang Jiang , Wenbin Li

Deep neural network training often involves stochastic optimization, meaning each run will produce a different model. This implies that hyperparameters of the training process, such as the random seed itself, can potentially have…

Machine Learning · Statistics 2025-04-17 Sinjini Banerjee , Tim Marrinan , Reilly Cannon , Tony Chiang , Anand D. Sarwate

A reliable inference of networks from data is of key interest in the Neurosciences. Several methods have been suggested in the literature to reliably determine links in a network. To decide about the presence of links, these techniques rely…

Physics and Society · Physics 2018-06-29 Gloria Cecchini , Marco Thiel , Bjoern Schelter , Linda Sommerlade

Community detection helps us simplify the complex configuration of networks, but communities are reliable only if they are statistically significant. To detect statistically significant communities, a common approach is to resample the…

Physics and Society · Physics 2013-02-12 Atieh Mirshahvalad , Olivier H. Beauchesne , Eric Archambault , Martin Rosvall

This paper reconsiders the problem of testing the equality of two unspecified continuous distributions. The framework, which we propose, allows for readable and insightful data visualisation and helps to understand and quantify how two…

Methodology · Statistics 2025-03-04 Bogdan Ćmiel , Teresa Ledwina

Kernel-based hypothesis tests offer a flexible, non-parametric tool to detect high-order interactions in multivariate data, beyond pairwise relationships. Yet the scalability of such tests is limited by the computationally demanding…

Methodology · Statistics 2025-06-09 Zhaolu Liu , Robert L. Peach , Mauricio Barahona

Understanding the architectural subtleties of ecological networks, believed to confer them enhanced stability and robustness, is a subject of outmost relevance. Mutualistic interactions have been profusely studied and their corresponding…

Populations and Evolution · Quantitative Biology 2015-02-19 Virginia Domínguez-García , Miguel A. Muñoz

Network meta-analysis is a powerful tool to synthesize evidence from independent studies and compare multiple treatments simultaneously. A critical task of performing a network meta-analysis is to offer ranks of all available treatment…

Methodology · Statistics 2022-07-15 Andrés F. Barrientos , Garritt L. Page , Lifeng Lin

Proteins are an important class of biomolecules that serve as essential building blocks of the cells. Their three-dimensional structures are responsible for their functions. In this thesis we have investigated the protein structures using a…

Molecular Networks · Quantitative Biology 2007-11-19 Ganesh Bagler

Understanding and quantifying node importance is a fundamental problem in network science and engineering, underpinning a wide range of applications such as influence maximization, social recommendation, and network dismantling. Prior…

Social and Information Networks · Computer Science 2026-02-17 Jiahui Gao , Kuang Zhou , Yuchen Zhu , Keyu Wu

We examine two types of similarity networks each based on a distinct notion of relevance. For both types of similarity networks we present an efficient inference algorithm that works under the assumption that every event has a nonzero…

Artificial Intelligence · Computer Science 2015-05-19 Dan Geiger , David Heckerman

We introduce a class of generative network models that insert edges by connecting the starting and terminal vertices of a random walk on the network graph. Within the taxonomy of statistical network models, this class is distinguished by…

Methodology · Statistics 2018-07-11 Benjamin Bloem-Reddy , Peter Orbanz

Identifying subgroups of respondents in psychometric data is traditionally addressed with Latent Class Analysis, which requires the number of classes to be specified a priori and can perform poorly when strong inter-item correlations…

Physics and Society · Physics 2026-05-29 Arianna Armanetti , Luca Cecchetti , Eiko Fried , Diego Garlaschelli , Miguel Ibáñez-Berganza

Neural networks are becoming increasingly prevalent in software, and it is therefore important to be able to verify their behavior. Because verifying the correctness of neural networks is extremely challenging, it is common to focus on the…

Machine Learning · Computer Science 2019-02-19 Ravi Mangal , Aditya V. Nori , Alessandro Orso

Simultaneous recordings from many neurons hide important information and the connections characterizing the network remain generally undiscovered despite the progresses of statistical and machine learning techniques. Discerning the presence…

Applications · Statistics 2019-03-21 Pietro Verzelli , Laura Sacerdote

In this paper we show that reporting a single performance score is insufficient to compare non-deterministic approaches. We demonstrate for common sequence tagging tasks that the seed value for the random number generator can result in…

Computation and Language · Computer Science 2017-08-01 Nils Reimers , Iryna Gurevych

Many real-world applications can be modelled as complex networks, and such networks include the Internet, epidemic disease networks, transport networks, power grids, protein-folding structures and others. Network integrity and robustness…

Social and Information Networks · Computer Science 2020-03-11 Qian Li , San-Yang Liu , Xin-She Yang

Recent advancements have scaled neural networks to unprecedented sizes, achieving remarkable performance across a wide range of tasks. However, deploying these large-scale models on resource-constrained devices poses significant challenges…

Machine Learning · Computer Science 2024-10-22 Mostafa Hussien , Mahmoud Afifi , Kim Khoa Nguyen , Mohamed Cheriet

Link-prediction is an active research field within network theory, aiming at uncovering missing connections or predicting the emergence of future relationships from the observed network structure. This paper represents our contribution to…

Physics and Society · Physics 2018-07-20 Federica Parisi , Guido Caldarelli , Tiziano Squartini

Deep neural network is a state-of-art method in modern science and technology. Much statistical literature have been devoted to understanding its performance in nonparametric estimation, whereas the results are suboptimal due to a redundant…

Machine Learning · Computer Science 2021-08-18 Ruiqi Liu , Ben Boukai , Zuofeng Shang