publications

2026

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    Accuracy versus Perception: a Benchmark of Deep Learning Models for Single-Image Super-Resolution in Microscopy
    Iván Hidalgo-Cenalmor, Aitor González-Marfil, Bruno M Saraiva, and 7 more authors
    figshare, 2026
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  2. distilation-dinosim-logo.png
    Lightweight Zero-Shot Segmentation of Mitochondria in Electron Microscopy Images
    Aitor González-Marfil, Mirja Granfors, Giovanni Volpe, and 2 more authors
    In 2026 IEEE 23rd International Symposium on Biomedical Imaging (ISBI), 2026
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2025

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    ReScale4DL: balancing pixel and contextual information for enhanced bioimage segmentation
    Mariana G Ferreira, Bruno M Saraiva, António D Brito, and 3 more authors
    bioRxiv, 2025
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  2. photofitt-logo.png
    PhotoFiTT: A Quantitative Framework for Assessing Phototoxicity in Live-Cell Microscopy Experiments
    Mario Del Rosario, Estibaliz Gómez-de-Mariscal, Leonor Morgado, and 4 more authors
    Nature Communications, 2025
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  3. dinosim-logo.png
    DINOSim: Zero-Shot Object Detection and Semantic Segmentation on Microscopy Images
    Aitor González-Marfil, Estibaliz Gómez-de-Mariscal, and Ignacio Arganda-Carreras
    bioRxiv, 2025
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  4. This microtubule does not exist: Super-resolution microscopy image generation by a diffusion model
    Alon Saguy, Tav Nahimov, Maia Lehrman, and 5 more authors
    Small Methods, 2025
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2024

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    CellTracksColab — A platform for compiling, analyzing, and exploring tracking data
    Estibaliz Gómez-de-Mariscal, Hanna Grobe, Joanna W. Pylvänäinen, and 4 more authors
    Plos Biology, 2024
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  2. dl4miceverywhere-logo-small.png
    DL4MicEverywhere: Deep learning for microscopy made flexible, shareable, and reproducible
    Iván Hidalgo-Cenalmor, Joanna W Pylvänäinen, Mariana G Ferreira, and 8 more authors
    Nature Methods, 2024
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  3. phototoxicity-perspective.png
    Harnessing artificial intelligence to reduce phototoxicity in live imaging
    Estibaliz Gómez-de-Mariscal, Mario Del Rosario, Joanna W Pylvänäinen, and 2 more authors
    2024
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  4. Small extracellular vesicles promote stiffness-mediated metastasis
    Alexandra Sneider, Ying Liu, Bartholomew Starich, and 8 more authors
    Cancer research communications, 2024
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  5. MLL1 regulates cytokine-driven cell migration and metastasis
    Praful R Nair, Ludmila Danilova, Estibaliz Gómez-de-Mariscal, and 5 more authors
    Science Advances, 2024
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    The rise of data-driven microscopy powered by machine learning
    Leonor Morgado, Estibaliz Gómez-de-Mariscal, Hannah S Heil, and 1 more author
    Journal of Microscopy, 2024
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  7. jdll_natmethods.png
    JDLL: A library to run Deep Learning models on Java bioimage informatics platforms
    Carlos Haro, Stéphane Dallongeville, Thomas Musset, and 6 more authors
    Nature Methods, 2024
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2023

  1. Transertion and cell geometry organize the Escherichia coli nucleoid during rapid growth
    Christoph Spahn, Stuart Middlemiss, Estibaliz Gómez-de-Mariscal, and 4 more authors
    bioRxiv, 2023
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  2. live-cellDL.jpg
    Live-cell imaging in the deep learning era
    Joanna W Pylvänäinen, Estibaliz Gómez-de-Mariscal, Ricardo Henriques, and 1 more author
    Current Opinion in Cell Biology, 2023
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  3. phototoxicity-perspective.png
    Harnessing Artificial Intelligence To Reduce Phototoxicity in Live Imaging
    Estibaliz Gómez-de-Mariscal, Mario Del Rosario, Joanna W Pylvänäinen, and 2 more authors
    arXiv preprint arXiv:2308.04387, 2023
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  4. The Cell Tracking Challenge: 10 years of objective benchmarking
    Martin Maška, Vladimı́r Ulman, Pablo Delgado-Rodriguez, and 8 more authors
    Nature Methods, 2023
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  5. Roadmap on Deep Learning for Microscopy
    Giovanni Volpe, Carolina Wählby, Lei Tian, and 8 more authors
    ArXiv, 2023
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2022

  1. MLL1 regulates cytokine-driven cell migration and metastasis
    Praful R Nair, Ludmila Danilova, Estibaliz Gómez-de-Mariscal, and 5 more authors
    bioRxiv, 2022
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  2. DeepBacs for multi-task bacterial image analysis using open-source deep learning approaches
    Christoph Spahn, Estibaliz Gómez-de-Mariscal, Romain F Laine, and 8 more authors
    Communications biology, 2022
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  3. bioimagemodelzoo.jpeg
    BioImage Model Zoo: A Community-Driven Resource for Accessible Deep Learning in BioImage Analysis
    Wei Ouyang, Fynn Beuttenmueller, Estibaliz Gómez-de-Mariscal, and 8 more authors
    bioRxiv, 2022
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2021

  1. Search for temporal cell segmentation robustness in phase-contrast microscopy videos
    Estibaliz Gómez-de-Mariscal, Hasini Jayatilaka, Özgün Çiçek, and 3 more authors
    arXiv preprint arXiv:2112.08817, 2021
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  2. DeepImageJ: A user-friendly environment to run deep learning models in ImageJ
    Estibaliz Gómez-de-Mariscal, Carlos Garcı́a-López-de-Haro, Wei Ouyang, and 5 more authors
    Nature Methods, 2021
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  3. Use of the p-values as a size-dependent function to address practical differences when analyzing large datasets
    Estibaliz Gómez-de-Mariscal, Vanesa Guerrero, Alexandra Sneider, and 4 more authors
    Scientific reports, 2021
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2020

  1. Association of visual and quantitative heterogeneity of 18F-FDG PET images with treatment response in locally advanced rectal cancer: A feasibility study
    Paula Martin-Gonzalez, Estibaliz Gomez Mariscal, M Elena Martino, and 7 more authors
    Plos one, 2020
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2019

  1. Deep-learning-based segmentation of small extracellular vesicles in transmission electron microscopy images
    Estibaliz Gómez-de-Mariscal, Martin Maška, Anna Kotrbová, and 3 more authors
    Scientific reports, 2019
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2017

  1. Infrared thermography processing to characterize emotional stress: a pilot study
    E Gómez Mariscal, A Munoz-Barrutia, J Frutos, and 2 more authors
    2017