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Constructing gene regulatory networks is a fundamental task in systems biology. We introduce a Gaussian reciprocal graphical model for inference about gene regulatory relationships by integrating mRNA gene expression and DNA level…

Methodology · Statistics 2016-07-26 Yang Ni , Yuan Ji , Peter Mueller

Stream graphs model highly dynamic networks in which nodes and/or links arrive and/or leave over time. Strongly connected components in stream graphs were defined recently, but no algorithm was provided to compute them. We present here…

Social and Information Networks · Computer Science 2021-09-03 Léo Rannou , Clémence Magnien , Matthieu Latapy

Real-world data is often times associated with irregular structures that can analytically be represented as graphs. Having access to this graph, which is sometimes trivially evident from domain knowledge, provides a better representation of…

Signal Processing · Electrical Eng. & Systems 2020-06-16 Muhammad Asad Lodhi , Waheed U. Bajwa

Industries such as banking, telecom, and airlines - o6en have large so6ware systems that are several decades old. Many of these systems are written in old programming languages such as COBOL, PL/1, Assembler, etc. In many cases, the…

Software Engineering · Computer Science 2025-05-13 Saravanan Krishnan , Amith Singhee , Keerthi Narayan Raghunath , Alex Mathai , Atul Kumar , David Wenk

Relational DBMSs continue to dominate the database market, and inference problem on external schema of relational DBMS's is still an important issue in terms of data privacy.Especially for the last 10 years, external schema construction for…

Databases · Computer Science 2018-03-02 Ugur Turan , Ismail H. Toroslu , Murat Kantarcioglu

To uncover the city's fundamental functioning mechanisms, it is important to acquire a deep understanding of complicated relationships among citizens, location, and mobility behaviors. Previous research studies have applied direct…

Artificial Intelligence · Computer Science 2025-03-11 Tao Feng , Yunke Zhang , Xiaochen Fan , Huandong Wang , Yong Li

In the current era of neural networks and big data, higher dimensional data is processed for automation of different application areas. Graphs represent a complex data organization in which dependencies between more than one object or…

Machine Learning · Computer Science 2019-12-23 Ihsan Ullah , Mario Manzo , Mitul Shah , Michael Madden

Dependency knowledge of the form "x is independent of y once z is known" invariably obeys the four graphoid axioms, examples include probabilistic and database dependencies. Often, such knowledge can be represented efficiently with…

Artificial Intelligence · Computer Science 2013-04-10 Tom S. Verma , Judea Pearl

Sensitivity analysis is an important tool used in many domains of computational science to either gain insight into the mathematical model and interaction of its parameters or study the uncertainty propagation through the input-output…

Methodology · Statistics 2023-06-02 Juraj Kardos , Wouter Edeling , Diana Suleimenova , Derek Groen , Olaf Schenk

Gene interaction graphs aim to capture various relationships between genes and represent decades of biology research. When trying to make predictions from genomic data, those graphs could be used to overcome the curse of dimensionality by…

Navigating, visualizing, and discovery in graph data is frequently a difficult prospect. This is especially true for knowledge graphs (KGs), due to high number of possible labeled connections to other data. However, KGs are frequently…

Human-Computer Interaction · Computer Science 2025-08-12 Antrea Christou , Cogan Shimizu

Knowledge Graph Embedding (KGE) models are used to learn continuous representations of entities and relations. A key task in the literature is predicting missing links between entities. However, Knowledge Graphs are not just sets of links…

Artificial Intelligence · Computer Science 2023-08-28 Thiviyan Thanapalasingam , Emile van Krieken , Peter Bloem , Paul Groth

Graphs are general and powerful data representations which can model complex real-world phenomena, ranging from chemical compounds to social networks; however, effective feature extraction from graphs is not a trivial task, and much work…

A collaboration network is a graph formed by communication channels between parties. Parties communicate over these channels to establish secrets, simultaneously enforcing interdependencies between the secrets. The paper studies properties…

Logic in Computer Science · Computer Science 2010-11-02 Sara Miner More , Pavel Naumov

In a traditional Gaussian graphical model, data homogeneity is routinely assumed with no extra variables affecting the conditional independence. In modern genomic datasets, there is an abundance of auxiliary information, which often gets…

Methodology · Statistics 2023-08-16 Yabo Niu , Yang Ni , Debdeep Pati , Bani K. Mallick

Graphs are quickly emerging as a leading abstraction for the representation of data. One important application domain originates from an emerging discipline called "connectomics". Connectomics studies the brain as a graph; vertices…

Learning the right graph representation from noisy, multisource data has garnered significant interest in recent years. A central tenet of this problem is relational learning. Here the objective is to incorporate the partial information…

Machine Learning · Computer Science 2014-01-15 Rajmonda Caceres , Kevin Carter , Jeremy Kun

Graphs are a powerful tool for representing and analyzing unstructured, non-Euclidean data ubiquitous in the healthcare domain. Two prominent examples are molecule property prediction and brain connectome analysis. Importantly, recent works…

Machine Learning · Computer Science 2022-04-04 Kamilia Mullakaeva , Luca Cosmo , Anees Kazi , Seyed-Ahmad Ahmadi , Nassir Navab , Michael M. Bronstein

Knowledge Graphs (KGs) represent real-world noisy raw information in a structured form, capturing relationships between entities. However, for dynamic real-world applications such as social networks, recommender systems, computational…

Artificial Intelligence · Computer Science 2020-03-26 Amit Sheth , Swati Padhee , Amelie Gyrard

Nowadays, quickly evolving and delivering software through a continuous delivery process is a competitive advantage and a way to keep software updated in response to the frequent changes in customers' requirements. However, the faster the…

Software Engineering · Computer Science 2018-09-28 Felipe Curty , Troy Kohwalter , Vanessa Braganholo , Leonardo Murta