Publications

State-Space Model Inspired Multiple-Input Multiple-Output Spiking Neurons

Karilanova, Sanja; Dey, Subhrakanti; Özcelikkale, Ayca

2025

Conference paper

• DOI for State-Space Model Inspired Multiple-Input Multiple-Output Spiking Neurons

Computationally Efficient DFT-Based Sampling of Ion Diffusion in Crystalline Solids

Gustafsson, Hannes; Schwarz, Fabian; Smolders, Thijs J. A. M.; Barthel, Senja et al.

Part of Journal of Chemical Theory and Computation, p. 8669-8682, 2025

Article in journal

• DOI for Computationally Efficient DFT-Based Sampling of Ion Diffusion in Crystalline Solids
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Bayesian three-point water models

Nordman, Alfred T.; Engblom, Stefan; Van der Spoel, David

Part of npj Computational Materials, 2025

Article in journal

• DOI for Bayesian three-point water models
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From asymptotic distribution and vague convergence to uniform convergence, with numerical applications

Barbarino, Giovanni; Ekström, Sven-Erik; Garoni, Carlo; Meadon, David et al.

Part of Journal of Numerical Mathematics, 2025

Article in journal

• DOI for From asymptotic distribution and vague convergence to uniform convergence, with numerical applications

Sound Speed Approximation Using B-mode Image Alignment with Steered Focused Transmits

Bezek, Can Deniz; Koudelka, Paul; Denkin, Roman; Göksel, Orcun

Part of 2025 IEEE International Ultrasonics Symposium (IUS), 2025

Conference paper

Exploiting the Asymmetric Uncertainty Structure of Pre-trained VLMs on the Unit Hypersphere

Ju, Li; Andersson, Max; Fredriksson, Stina; Glöckner, Edward et al.

2025

Conference paper

On canonical differential equations for Calabi-Yau multi-scale Feynman integrals

Maggio, Sara; Sohnle, Yoann

Part of Journal of High Energy Physics (JHEP), 2025

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• DOI for On canonical differential equations for Calabi-Yau multi-scale Feynman integrals
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Dipole orientation of hydrated gas phase proteins

Agelii, Harald; Jakobsson, Ellen L. S.; De Santis, Emiliano; Elfrink, Gideon et al.

Part of Physical Chemistry, Chemical Physics - PCCP, 2025

Article in journal

• DOI for Dipole orientation of hydrated gas phase proteins
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Looping the loops: a tale of elliptic dual Feynman integrals

Giroux, Mathieu; Pokraka, Andrzej; Porkert, Franziska; Sohnle, Yoann

Part of 16th International Symposium on Radiative Corrections, 2024

Conference paper

• DOI for Looping the loops: a tale of elliptic dual Feynman integrals
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Interpretable neural network predictions of high-intensity femtosecond x-ray free-electron laser pulses using sulfur K-shell emission spectra

Agelii, Harald; Bellisario, Alfredo; Caleman, Carl; Timneanu, Nicusor et al.

Part of Physical Review Research, 2025

Article in journal

• DOI for Interpretable neural network predictions of high-intensity femtosecond x-ray free-electron laser pulses using sulfur K-shell emission spectra

Image-based tissue characterization with sound speed

Denkin, Roman; Göksel, Orcun

2025

Conference paper

Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach

Menz, Gesina; Engblom, Stefan

Part of Bulletin of Mathematical Biology, 2025

Article in journal

• DOI for Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
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Learning group invariant Calabi-Yau metrics by fundamental domain projections

Hendi, Yacoub; Larfors, Magdalena; Walden, Moritz

Part of Machine Learning, 2025

Article in journal

• DOI for Learning group invariant Calabi-Yau metrics by fundamental domain projections
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PiNN: Equivariant Neural Network Suite for Modeling Electrochemical Systems

Li, Jichen; Knijff, Lisanne; Zhang, Zhan-Yun; Andersson, Linnéa et al.

Part of Journal of Chemical Theory and Computation, p. 1382-1395, 2025

Article in journal

• DOI for PiNN: Equivariant Neural Network Suite for Modeling Electrochemical Systems
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Spectral properties of flipped Toeplitz matrices and computational applications

Barbarino, Giovanni; Ekström, Sven-Erik; Garoni, Carlo; Meadon, David et al.

Part of Applied Mathematics and Computation, 2025

Article in journal

• DOI for Spectral properties of flipped Toeplitz matrices and computational applications
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Topics in Cohomological Field Theory: Let's Twist Again!

Mauch, Roman

2025

Doctoral thesis, comprehensive summary

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The Equivariant B model

Festuccia, Guido; Mauch, Roman; Zabzine, Maxim

Part of Journal of High Energy Physics (JHEP), 2025

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• DOI for The Equivariant B model
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Codimension-Two Defects and SYM on Orbifolds

Mauch, Roman; Ruggeri, Lorenzo

Part of Journal of High Energy Physics (JHEP), 2025

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• DOI for Codimension-Two Defects and SYM on Orbifolds
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From 5d flat connections to 4d fluxes (the art of slicing the cone)

Lundin, Jim; Mauch, Roman; Ruggeri, Lorenzo

Part of Journal of High Energy Physics (JHEP), 2023

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• DOI for From 5d flat connections to 4d fluxes (the art of slicing the cone)
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Probabilistic Models of Genetic Variability in Sequence Evolution

Müller-Widmann, Rebekka

2025

Doctoral thesis, comprehensive summary

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Global Tissue Speed-of-Sound via Comparative and Absolute Image Metrics in Ultrasound

Denkin, Roman; Göksel, Orcun

2025

Conference paper

Probabilistic models of codon sequence evolution during speciation

Müller-Widmann, Rebekka; Mugal, Carina F.; Kaj, Ingemar

Manuscript (preprint)

Signatures of GC-biased gene conversion across different time scales display the underlying recombination hotspot dynamics

Müller-Widmann, Rebekka; Kaj, Ingemar; Mugal, Carina F.

Manuscript (preprint)

Assessing Image Quality Metrics for Global Sound-Speed Estimation in Ultrasound

Denkin, Roman; Göksel, Orcun

2024

Conference paper

Comparative Study of Image Quality Metrics for Global Sound-Speed Estimation

Denkin, Roman; Göksel, Orcun

2024

Conference paper

Detection of Extremely Sparse Key Instances in Whole Slide Cytology Images via Self-supervised One-class Representation Learning

Chatterjee, Swarnadip; Göksel, Orcun; Sladoje, Nataša; Lindblad, Joakim

Part of Pattern Recognition, p. 408-421, 2024

Conference paper

• DOI for Detection of Extremely Sparse Key Instances in Whole Slide Cytology Images via Self-supervised One-class Representation Learning

Matrix-less spectral approximation for large structured matrices

Barbarino, Giovanni; Claesson, Melker; Ekström, Sven-Erik; Garoni, Carlo et al.

Part of BIT Numerical Mathematics, 2025

Article in journal

• DOI for Matrix-less spectral approximation for large structured matrices
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Dipole and Charge Prediction for Electrochemical Systems from Atomistic Machine Learning

Knijff, Lisanne

2025

Doctoral thesis, comprehensive summary

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PiNN: equivariant neural network suite for modelling electrochemical systems

Li, Jichen; Knijff, Lisanne; Zhang, Zhan-Yun; Andersson, Linnéa et al.

2024

Article in journal

• DOI for PiNN: equivariant neural network suite for modelling electrochemical systems

InfoHier: Hierarchical Information Extraction via Encoding and Embedding

Zhang, Tianru; Ju, Li; Singh, Prashant; Toor, Salman

Manuscript (preprint)

Modeling of Nanomaterials for Supercapacitors: Beyond Carbon Electrodes

Bi, Sheng; Knijff, Lisanne; Lian, Xiliang; van Hees, Alicia et al.

Part of ACS Nano, p. 19931-19949, 2024

Article, review/survey

• DOI for Modeling of Nanomaterials for Supercapacitors: Beyond Carbon Electrodes
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Federated learning for predicting compound mechanism of action based on image-data from cell painting

Ju, Li; Hellander, Andreas; Spjuth, Ola

Part of Artificial Intelligence in the Life Sciences, 2024

Article in journal

• DOI for Federated learning for predicting compound mechanism of action based on image-data from cell painting
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Accelerating Fair Federated Learning: Adaptive Federated Adam

Ju, Li; Zhang, Tianru; Toor, Salman; Hellander, Andreas

Part of IEEE Transactions on Machine Learning in Communications and Networking, p. 1017-1032, 2024

Article in journal

• DOI for Accelerating Fair Federated Learning: Adaptive Federated Adam
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The soaring kite: a tale of two punctured tori

Giroux, Mathieu; Pokraka, Andrzej; Porkert, Franziska; Sohnle, Yoann

Part of Journal of High Energy Physics (JHEP), 2024

Article in journal

• DOI for The soaring kite: a tale of two punctured tori
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"The six blind men and the elephant": An Interdisciplinary Selection of Measurement Features

Ellingsen, Ask; Lundholm, Douglas; Magnot, Jean-Pierre

Part of Geometric Methods in Physics XL, p. 275-307, 2024

Conference paper

• DOI for "The six blind men and the elephant": An Interdisciplinary Selection of Measurement Features

UpStory: the uppsala storytelling dataset

Fraile, Marc; Calvo-Barajas, Natalia; Apeiron, Anastasia Sophia; Varni, Giovanna et al.

Part of Frontiers in Robotics and AI, 2025

Article in journal

• DOI for UpStory: the uppsala storytelling dataset
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Computer Vision and Explainability in Human-Human and Human-Robot Interaction

Fraile, Marc

2024

Doctoral thesis, comprehensive summary

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Are We Friends?: End-to-End Prediction of Child Rapport in Guided Play

Fraile, Marc; Varni, Giovanna; Lindblad, Joakim; Sladoje, Nataša et al.

Part of Computer Vision – ECCV 2024 Workshops, p. 380-392, 2024

Conference paper

• DOI for Are We Friends?: End-to-End Prediction of Child Rapport in Guided Play

Super Yang-Mills on branched covers and weighted projective spaces

Mauch, Roman; Ruggeri, Lorenzo

Part of Journal of High Energy Physics (JHEP), 2024

Article in journal

• DOI for Super Yang-Mills on branched covers and weighted projective spaces
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Demo Abstract: Blades: A Unified Benchmark Suite for Byzantine-Resilient in Federated Learning

Li, Shenghui; Ngait, Edith C. -H.; Ye, Fanghua; Ju, Li et al.

Part of 9TH ACM/IEEE CONFERENCE ON INTERNET OF THINGS DESIGN AND IMPLEMENTATION, IOTDI 2024, p. 229-230, 2024

Conference paper

• DOI for Demo Abstract: Blades: A Unified Benchmark Suite for Byzantine-Resilient in Federated Learning

Blades: A Unified Benchmark Suite for Byzantine Attacks and Defenses in Federated Learning

Li, Shenghui; Ngai, Edith C. H.; Ye, Fanghua; Ju, Li et al.

Part of 2024 IEEE/ACM Ninth International Conference on Internet-of-Things Design and Implementation (IoTDI), p. 158-169, 2024

Conference paper

• DOI for Blades: A Unified Benchmark Suite for Byzantine Attacks and Defenses in Federated Learning

A Wright-Fisher graph model and the impact of directional selection on genetic variation

Kaj, Ingemar; Mugal, Carina F.; Müller-Widmann, Rebekka

Part of Theoretical Population Biology, p. 13-24, 2024

Article in journal

• DOI for A Wright-Fisher graph model and the impact of directional selection on genetic variation
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The β maps: Strong clustering and distribution results on the complex unit circle

Schiavoni-Piazza, Alec J. A.; Meadon, David; Serra, Stefano

Part of Linear Algebra and its Applications, p. 365-383, 2024

Article in journal

• DOI for The β maps: Strong clustering and distribution results on the complex unit circle
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Modeling and Estimation of Impulsive Biomedical Systems

Runvik, Håkan

2023

Licentiate thesis, comprehensive summary

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Robust One-Step Estimation of Impulsive Time Series

Runvik, Håkan; Medvedev, Alexander

Manuscript (preprint)

• DOI for Robust One-Step Estimation of Impulsive Time Series

Spike timing–based coding in neuromimetic tactile system enables dynamic object classification

Chen, Libo; Karilanova, Sanja; Chaki, Soumi; Wen, Chenyu et al.

Part of Science, p. 660-665, 2024

Article in journal

• DOI for Spike timing–based coding in neuromimetic tactile system enables dynamic object classification
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Reversible Hydration Enabling High-Rate Aqueous Li-Ion Batteries

Zhang, Leiting; Kühling, Franziska; Mattsson, Agnes-Matilda; Knijff, Lisanne et al.

Part of ACS Energy Letters, p. 959-966, 2024

Article in journal

• DOI for Reversible Hydration Enabling High-Rate Aqueous Li-Ion Batteries
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Predicting Ion Diffusion from the Shape of Potential Energy Landscapes

Gustafsson, Hannes; Kozdra, Melania; Smit, Berend; Barthel, Senja et al.

Part of Journal of Chemical Theory and Computation, p. 18-29, 2024

Article in journal

• DOI for Predicting Ion Diffusion from the Shape of Potential Energy Landscapes
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Cycles in Impulsive Goodwin's Oscillators of arbitrary order☆

Proskurnikov, Anton V.; Runvik, Håkan; Medvedev, Alexander

Part of Automatica, 2024

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• DOI for Cycles in Impulsive Goodwin's Oscillators of arbitrary order☆
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PiNNwall: Heterogeneous Electrode Models from Integrating Machine Learning and Atomistic Simulation

Dufils, Thomas; Knijff, Lisanne; Shao, Yunqi; Zhang, Chao

Part of Journal of Chemical Theory and Computation, p. 5199-5209, 2023

Article in journal

• DOI for PiNNwall: Heterogeneous Electrode Models from Integrating Machine Learning and Atomistic Simulation
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