Publications related to Analyzing Semantic Interoperability in Bioinformatic Database Networks

The Strong Integral Input-to-State Stability Property in Dynamical Flow Networks

Dynamical flow networks serve as macroscopic models for, e.g., transportation networks, queuing networks, and distribution networks. While the flow dynamics in such networks follow the conservation of mass on the links, the outflow from each link is often ...

Ieee-Inst Electrical Electronics Engineers Inc2024

Estimating the Topology of Preferential Attachment Graphs Under Partial Observability

Ali H. Sayed, Michele Cirillo

This work addresses the problem of learning the topology of a network from the signals emitted by the network nodes. These signals are generated over time through a linear diffusion process, where neighboring nodes exchange messages according to the underl ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2023

A continuum approximation approach to the depot location problem in a crowd-shipping system

Nikolaos Geroliminis, Patrick Stefan Adriaan Stokkink

Last-mile delivery in the logistics chain contributes to congestion in urban networks due to frequent stops. Crowd-shipping is a sustainable and low-cost alternative to traditional delivery but relies heavily on the availability of occasional couriers. In ...

PERGAMON-ELSEVIER SCIENCE LTD2023

Equilibria in Network Constrained Energy Markets

Leonardo Massai

We study an energy market composed of producers who compete to supply energy to different markets and want to maximize their profits. The energy market is modeled by a graph representing a constrained power network where nodes represent the markets and lin ...

Elsevier2023

Expanding computational biochemistry towards complex and non-natural compounds

Anastasia Sveshnikova

In the beginning was the metabolism. The biochemical processes that make life possible transformed the soup of chemicals into the life on Earth we know today. Since then, living organisms have evolved, and life on Earth has become more complex. Living orga ...

EPFL2023

Two-layer adaptive signal control framework for large-scale networks combining efficient Max-Pressure and Perimeter Control

Nikolaos Geroliminis, Anastasios Kouvelas, Dimitrios Tsitsokas

This work investigates the benefits of a two-layer adaptive signal control framework combining multi-region perimeter control (PC) with distributed Max Pressure (MP) control in selected network intersections. Motivated by MP’s questionable performance in o ...

2022

Large-scale traffic signal control and multimodal network design

Dimitrios Tsitsokas

Traffic congestion constitutes one of the most frequent, yet challenging, problems to address in the urban space. Caused by the concentration of population, whose mobility needs surpass the serving capacity of urban networks, congestion cannot be resolved ...

EPFL2022

Maintenance scheduling of manufacturing systems based on optimal price of the network

Olga Fink

Goods can exhibit positive externalities impacting decisions of customers in social networks. Suppliers can integrate these externalities in their pricing strategies to increase their revenue. Besides optimizing the prize, suppliers also have to consider t ...

2022

Opinion Formation over Adaptive Networks

Virginia Bordignon

An adaptive network consists of multiple communicating agents, equipped with sensing and learning abilities that allow them to extract meaningful information from measurements. The objective of the network is to solve a global inference problem in a decent ...

EPFL2022

The Role of Adaptivity in Source Identification with Time Queries

Gergely Odor

Understanding epidemic propagation in large networks is an important but challenging task, especially since we usually lack information, and the information that we have is often counter-intuitive. An illustrative example is the dependence of the final siz ...

EPFL2022

Critical node selection method for efficient Max-Pressure traffic signal control in large-scale congested networks

Nikolaos Geroliminis, Anastasios Kouvelas, Dimitrios Tsitsokas

Decentralized signal control of congested traffic networks based on the Max-Pressure (MP) controller is theoretically proven to maximize throughput, stabilize the system and balance queues for single intersections under specific conditions. However, its pe ...

2022

Information Retrieval Under Network Uncertainty: Robust Internet Ranking

Ralf Seifert, Anna Timonina-Farkas

Internet ranking algorithms play a crucial role in information technologies and numerical analysis due to their efficiency in high dimensions and wide range of possible applications, including scientometrics and systemic risk in finance (SinkRank, DebtRank ...

2023

True scale-free networks hidden by finite size effects

Andrea Rinaldo, Samir Suweis, Amos Maritan

We analyze about 200 naturally occurring networks with distinct dynamical origins to formally test whether the commonly assumed hypothesis of an underlying scale-free structure is generally viable. This has recently been questioned on the basis of statisti ...

National Academy of Sciences2021

Atomic subgraphs and the statistical mechanics of networks

Sofia Charlotta Olhede

We develop random graph models where graphs are generated by connecting not only pairs of vertices by edges, but also larger subsets of vertices by copies of small atomic subgraphs of arbitrary topology. This allows for the generation of graphs with extens ...

2021

Learning Bollobas-Riordan Graphs Under Partial Observability

Ali H. Sayed, Michele Cirillo

This work examines the problem of learning the topology of a network (graph learning) from the signals produced at a subset of the network nodes (partial observability). This challenging problem was recently tackled assuming that the topology is drawn acco ...

IEEE2021

Geometry of the Loss Landscape in Overparameterized Neural Networks: Symmetries and Invariances

Wulfram Gerstner, Clément Hongler, Johanni Michael Brea, Francesco Spadaro, Berfin Simsek, Arthur Jacot

We study how permutation symmetries in overparameterized multi-layer neural networks generate `symmetry-induced' critical points. Assuming a network with

L

layers of minimal widths

r_1^*, \ldots, r_{L-1}^*

reaches a zero-loss minimum at $ r_1^*! \c ...

2021

NICEpath: Finding metabolic pathways in large networks through atom-conserving substrate-product pairs

Vassily Hatzimanikatis, Jasmin Maria Hafner

Motivation: Finding biosynthetic pathways is essential for metabolic engineering of organisms to produce chemicals, biodegradation prediction of pollutants and drugs, and for the elucidation of bioproduction pathways of secondary metabolites. A key step in ...

OXFORD UNIV PRESS2021

The structural connectome and motor recovery after stroke: predicting natural recovery

Jean-Philippe Thiran, Philip Egger, Elena Beanato, Gabriel Girard, Friedhelm Christoph Hummel, Takuya Morishita, Maximilian Jonas Wessel, Philipp Johannes Koch, Giorgia Giulia Evangelista, Chang-Hyun Park

Stroke patients vary considerably in terms of outcomes: some patients present ‘natural’ recovery proportional to their initial impairment (fitters), while others do not (non-fitters). Thus, a key challenge in stroke rehabilitation is to identify individual ...

2021

The Metabolic Regimes at the Scale of an Entire Stream Network Unveiled Through Sensor Data and Machine Learning

Enrico Bertuzzo, Tom Ian Battin, Pier Luigi Segatto

Streams and rivers form dense networks that drain the terrestrial landscape and are relevant for biodiversity dynamics, ecosystem functioning, and transport and transformation of carbon. Yet, resolving in both space and time gross primary production (GPP), ...

2021

Modeling and optimization of dedicated bus lanes space allocation in large networks with dynamic congestion

Nikolaos Geroliminis, Anastasios Kouvelas, Dimitrios Tsitsokas

Dedicated bus lanes provide a low cost and easily implementable strategy to improve transit service by minimizing congestion-related delays. Identifying the best spatial distribution of bus-only lanes in order to maximize traffic performance of an urban ne ...

2021