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Estibaliz Gómez de Mariscal leads the AI and Microscopy for BioMedical Discovery (AIM4Bio) group at NOVA Institute for Medical Systems Biology (NIMSB). She develops new AI-powered image-driven approaches to unveil cellular behaviour. -BACKGROUND- She obtained a 5-years degree in Mathematics at Universidad del País Vasco, Spain (2014) and a MSc in Statistical and Computational Data Processing from the Universidad Complutense de Madrid, Spain (2016). Supported by a 4-year scholarship for tuition fees and salary, she defended her PhD in Mathematical Engineering at Universidad Carlos III de Madrid, Spain, in 2021/09/28, was awarded Cum Laude and recognised with the Outstanding Thesis Prize from the university. Since 2021, she has been a postdoctoral fellow at Henriques Lab (IGC, GIMM, and now in ITQB). Overall, she secured funds (~3.715M) via grants (PhD, MSc & postdoc(EMBO,FCT CEEC), Wellcome Trust Discovery Award), European Cost Actions (international mobility) and SIB2 President Innovation Award. -TEACHING & SUPERVISION- She was a teacher assistant in bioimage analysis, biomedical microdevices and transport phenomena courses in BSc and MSc degrees, and lecturer in KTH and University of Stockholm. She supervised 2 BSc final projects, a summer research lab student from Johns Hopkins University, and co-supervised internationally a BSc, 2 MSc and, currently, a PhD student, 2 software engineers and 1 BSc. She was in the committee of 1 MSc and 3 PhD thesis defences. -SCIENTIFIC CONTRIBUTIONS- Her research lies in the intersection between AI, image processing and life sciences. She has 19 JCR publications, 6 preprints, 1 book chapter and 3 peer-reviewed conferences, with a cumulative impact factor of 52.987. Last corresponding author of 2 publications; first-author of 5 papers, 3 preprints, 1 book chapter, 2 computer sciences conferences. 4 papers in top 1% and 3 in top 10% journals in Biochemistry, Genetics and Molecular Biology; 1 paper in the top 5% journals in Chemistry, and 1 paper in top 2% and 2 in top 10% journals in Multidisciplinary Sciences (Scimago, 2024). She has been an invited speaker and presented her work at more than 20 international conferences in oral (SPAOM19,20,25; ISBI20, ELMI21&25, Bioimage Informatics 2021, FOM2022&23, SMLMS25), poster communications (ISBI18, ELMI18, SPAOM18, NEUBIAS Symposium 2020, CBIA21, MIDL 2022, Imaging Cell Dynamics 2023) and community workshops (NEUBIAS 2020&23, IEEE SPS-SS on Biomedical Signal and Image Processing - Chile 2020). She was an invited speaker 16 times (CBIAS22, FENS Forum22, Imaging Life: The future) and faculty to schools (ZIDAS 20&21, DL@MBL22, Front. in Neurophotonics CERVO 2022&23, EBI-EMBL21&22&23, EMBO practical courses). -OUTREACH- Estibaliz is a reviewer for journals (Nat Methods, Nat Machine Intelligence, IEEE Transactions on Medical Imaging, Medical Image Analysis), conferences (MICCAI, MIDL, ISBI) and projects (NSERC). She was involved in scientific dissemination and promotion of diversity activities (International Day of Women and Girls in Science, February 11, 2018-2019, Week of Science Activities UC3M 2018, ITQB day 2025). -COLLABORATIONS- Her work shows productive international collaboration with renowned institutions (Wirtz Lab at Johns Hopkins University, Masaryk University, Computer Vision Group at the Uni. of Freiburg, EPFL, EMBL, University of Turku, Human Technopole). She is part of the Bioimage.IO initiative and the Cell Tracking Challenge. -OPEN SCIENCE- Committed to open-science, she publishes all software advances under the FAIR principles (DeepImageJ, pMoSS, DeepBacs, BioImage.IO, microscopy-dl-suite, Cell Tracking Challenge, DL4MicEverywhere, DinoSIM). She communicates openly via X, bsky and LinkedIn (@gomez_mariscal, summing 2500 followers), image.sc forum and GitHub(@esgomem).
Ler resumo completo ↓
Identificação

Identificação pessoal

Nome completo
Estibaliz Gómez-de-Mariscal

Nomes de citação

  • Gómez-de-Mariscal, Estibaliz
  • E. Gómez-de-Mariscal

Identificadores de autor

Ciência ID
C31E-48AF-F085
ORCID iD
0000-0003-2082-3277
Google Scholar ID
gsg-TAUAAAAJ&hl
Researcher Id
C-4637-2018
Scopus Author Id
57210992380

Endereços de correio eletrónico

  • egomez@gmail.com (Pessoal)

Websites

Domínios de atuação

  • Ciências Exatas - Ciências da Computação e da Informação - Bioinformática
  • Ciências Exatas - Matemática
  • Ciências da Engenharia e Tecnologias
  • Ciências Exatas - Ciências da Computação e da Informação - Ciências da Computação
  • Ciências Naturais - Ciências Biológicas - Biologia Celular
  • Ciências Naturais - Ciências Biológicas - Biofísica

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Espanhol; Castelhano (Idioma materno)
Inglês Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Basco Utilizador proficiente (C1) Utilizador proficiente (C2) Utilizador proficiente (C1) Utilizador proficiente (C2) Utilizador proficiente (C1)
Português Utilizador independente (B2) Utilizador proficiente (C1) Utilizador independente (B2) Utilizador independente (B2) Utilizador independente (B1)
Formação
Grau Classificação
2017/09/15 - 2021/09/30
Concluído
 Ph.D in Mathematical Engineering (Doctor of Philosophy)
Universidad Carlos III de Madrid - Campus de Leganés, Espanha
"Insights to the characterization of cell motility and intercellular communication through a bioimage analysis perspective" (TESE/DISSERTAÇÃO)
 Merit (10/10) with Cum Laude Distinction
2015/09/01 - 2016/09/30
Concluído
 MSc in Statistical and Computational Data Processing (Postgraduate Certificate)
Universidad Complutense de Madrid, Espanha
"Processing of IRT images taken under emotional stress situations" (TESE/DISSERTAÇÃO)
 Very good (8.93/10) - Ranking: 5/18
2009/09/01 - 2014/06/30
Concluído
 Licenciatura en Matemáticas (Licence)
Universidad del País Vasco - Campus Bizkaia, Espanha
 Very good (7.82/10) - Ranking: 10/38
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2026/06/01 - Atual Investigador principal (carreira) (Investigação) Universidade Nova de Lisboa Medical School, Portugal
NOVA Institute for Medical Systems Biology, Portugal
2024/10/01 - Atual Pós-doutorado (Investigação) Gulbenkian Institute for Molecular Medicine, Portugal
Gulbenkian Institute for Molecular Medicine, Portugal
2024/10/01 - Atual Pós-doutorado (Investigação) Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica António Xavier, Portugal
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica António Xavier, Portugal
2021/10/01 - 2024/10/01 Pós-doutorado (Investigação) Fundação Calouste Gulbenkian, Portugal
Instituto Gulbenkian de Ciência, Portugal
2016/10/01 - 2021/09/30 Estagiário de Investigação (Investigação) Universidad Carlos III de Madrid - Campus de Leganés, Espanha

Outros

Categoria Profissional
Instituição de acolhimento 		Empregador
2016/07 - 2016/09 Biostatistician Linical S.L., Espanha
2014/11 - 2015/09 Financial consultant Management Solutions, Espanha
Projetos

Bolsa

Designação Financiadores
2026/05/01 - 2031/04/30 How are bunyavirus replication factories built?
336056/Z/25/Z
Co-Investigador Responsável (Co-IR)
University of Leeds, Reino Unido

NOVA Institute for Medical Systems Biology, Portugal

Biofisika Unitatea, Espanha
Wellcome Trust
Em curso

Projeto

Designação Financiadores
2024/09/01 - 2030/08 SMALS: Smart Microscopy for Adaptative Live Super-resolution imaging to elucidate the initial steps of the HIV viral transmission
2023.09182.CEECIND
Investigador responsável
Gulbenkian Institute for Molecular Medicine Oeiras Site, Portugal
Em curso
2022/09/01 - 2024/08/31 A transformative data-driven live-cell super-resolution microscopy development to elucidate the initial steps of effective viral transmission
EMBO ALTF 174-2022
Bolseiro de Investigação
Instituto Gulbenkian de Ciência, Portugal
 European Molecular Biology Laboratory
Em curso
2016/10/01 - 2017/08/31 Imaging and measuring cancer cell mechanics
TEC2013-48552-C2
Bolseiro de Técnico de Investigação
España Ministerio de Ciencia e Innovación
Concluído

Outro

Designação Financiadores
2022/09/01 - 2025/08/31 Artificial Intelligence for Image Data Analysis in the Life Sciences (AI4Life)
101057970
Bolseiro de Integração na Investigação
Instituto Gulbenkian de Ciência, Portugal

EMBL Heidelberg Genome Biology, Alemanha

Universidad Carlos III de Madrid, Espanha

Fondazione Human Technopole, Itália

Kungliga Tekniska Högskolan, Suécia

Euro-Bioimaging, Finlândia
European Union
Em curso
2020/06/01 - 2021/09/28 Plataforma de imagen multi-escala para acelerar el desarrollo de fármacos contra infecciones pulmonares
PID2019-109820RB-I00
Bolseiro de Doutoramento
España Ministerio de Ciencia e Innovación
2017/09/01 - 2019/11/30 Imagen paramétrica del cerebro embrionario: Una nueva propuesta de instrumentación biomédica de altas prestaciones
TEC2016-78052-R
Bolseiro de Doutoramento
España Ministerio de Ciencia e Innovación
2017/09/01 - 2018/03/31 Descifrando la estructura y la función de las protrusiones celulares en la migración tridimensional
TEC2015-73064-EXP
Bolseiro de Doutoramento
España Ministerio de Ciencia e Innovación
Produções

Publicações

Artigo em conferência
  1. Paula Martín-González; Gómez-de-Mariscal, Estibaliz; M. Elena. Martino; Pedro M. Gordaliza; J. Luis Carreras; F. A. Calvo; Javier Pascau; Manuel Desco; Arrate Muñoz-Barrutia. "PET Texture Analysis: Dois it Have Clinical Significance in Locally Advanced Rectal Cancer?". Trabalho apresentado em XXXV Congreso anual de la Sociedad Española de Ingeniería Biomédica, 2017.
  2. Gómez-de-Mariscal, Estibaliz; Arrate Muñoz-Barrutia; José de Frutos; Ana P. Gónzalez; Ana M. Ugena-Martínez. "Infrared thermography processing to characterize emotional stress: a pilot study". Trabalho apresentado em 8th ¿¿International Conference of Pattern Recognition Systems (ICPRS 2017), 2017.
    DOI: 10.1049/cp.2017.0148
Artigo em revista
  1. Gómez-de-Mariscal, Estibaliz; Henriques, Ricardo. "Roadmap on deep learning for microscopy". Journal of Physics: Photonics 8 1 (2026): https://iopscience.iop.org/article/10.1088/2515-7647/ae0fd1/meta.
    Acesso aberto • Publicado
  2. Mario Del Rosario; Estibaliz Gómez-de-Mariscal; Leonor Morgado; Raquel Portela; Guillaume Jacquemet; Pedro M. Pereira; Ricardo Henriques. "PhotoFiTT: a quantitative framework for assessing phototoxicity in live-cell microscopy experiments". Nature Communications (2025): https://doi.org/10.1038/s41467-025-66209-6.
    10.1038/s41467-025-66209-6
  3. Spahn, Christoph; Middlemiss, Stuart; Gómez-de-Mariscal, Estibaliz; Henriques, Ricardo; Bode, Helge B.; Holden, Séamus; Heilemann, Mike. "The nucleoid of rapidly growing Escherichia coli localizes close to the inner membrane and is organized by transcription, translation, and cell geometry". Nature Communications 16 1 (2025): https://doi.org/10.1038/s41467-025-58723-4.
    10.1038/s41467-025-58723-4
  4. Luke Sorensen; Adam Humenick; Sabrina S. B. Poon; Myat Noe Han; Narges S. Mahdavian; Matthew C. Rowe; Ryan Hamnett; et al. "Gut Analysis Toolbox – automating quantitative analysis of enteric neurons". Journal of Cell Science (2024): https://doi.org/10.1242/jcs.261950.
    10.1242/jcs.261950
  5. Saguy, Alon; Nahimov, Tav; Lehrman, Maia; Gómez-de-Mariscal, Estibaliz; Hidalgo-Cenalmor, Iván; Alalouf, Onit; Balakrishnan, Ashwin; et al. "This Microtubule Does Not Exist: Super-Resolution Microscopy Image Generation by a Diffusion Model". Small Methods (2024): https://doi.org/10.1002/smtd.202400672.
    10.1002/smtd.202400672
  6. Gómez-de-Mariscal, Estibaliz; Grobe, Hanna; Pylvänäinen, Joanna W.; Xénard, Laura; Henriques, Ricardo; Tinevez, Jean-Yves; Jacquemet, Guillaume. "CellTracksColab is a platform that enables compilation, analysis, and exploration of cell tracking data". PLOS Biology 22 8 (2024): e3002740. https://doi.org/10.1371/journal.pbio.3002740.
    10.1371/journal.pbio.3002740
  7. Hidalgo-Cenalmor, Iván; Pylvänäinen, Joanna W.; G. Ferreira, Mariana; Russell, Craig T.; Saguy, Alon; Arganda-Carreras, Ignacio; Shechtman, Yoav; et al. "DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible". Nature Methods 21 6 (2024): 925-927. https://doi.org/10.1038/s41592-024-02295-6.
    10.1038/s41592-024-02295-6
  8. Sneider, Alexandra; Liu, Ying; Starich, Bartholomew; Du, Wenxuan; Nair, Praful R.; Marar, Carolyn; Faqih, Najwa; et al. "Small Extracellular Vesicles Promote Stiffness-mediated Metastasis". Cancer Research Communications 4 5 (2024): 1240-1252. https://doi.org/10.1158/2767-9764.crc-23-0431.
    10.1158/2767-9764.crc-23-0431
  9. Praful R. Nair; Ludmila Danilova; Estibaliz Gómez-de-Mariscal; Dongjoo Kim; Rong Fan; Arrate Muñoz-Barrutia; Elana J. Fertig; Denis Wirtz. "MLL1 regulates cytokine-driven cell migration and metastasis". Science Advances (2024): https://doi.org/10.1126/sciadv.adk0785.
    10.1126/sciadv.adk0785
  10. Leonor Morgado; Estibaliz Gómez-de-Mariscal; Hannah S. Heil; Ricardo Henriques. "The rise of data-driven microscopy powered by machine learning". Journal of Microscopy (2024): https://doi.org/10.1111/jmi.13282.
    10.1111/jmi.13282
  11. Estibaliz Gómez-de-Mariscal; Mario Del Rosario; Joanna W. Pylvänäinen; Guillaume Jacquemet; Ricardo Henriques. "Harnessing artificial intelligence to reduce phototoxicity in live imaging". Journal of Cell Science (2024): https://doi.org/10.1242/jcs.261545.
    10.1242/jcs.261545
  12. Carlos García López de Haro; Stéphane Dallongeville; Thomas Musset; Estibaliz Gómez-de-Mariscal; Daniel Sage; Wei Ouyang; Arrate Muñoz-Barrutia; Jean-Yves Tinevez; Jean-Christophe Olivo-Marin. "JDLL: a library to run deep learning models on Java bioimage informatics platforms". Nature Methods (2024): https://doi.org/10.1038/s41592-023-02129-x.
    10.1038/s41592-023-02129-x
  13. Martin Maška; Vladimír Ulman; Pablo Delgado-Rodriguez; Gómez-de-Mariscal, Estibaliz; Fidel Guerrero Peña; Tsang Ing Ren ; Elliot Meyerowitz; et al. Autor correspondente: Carlos Ortiz de Solorzano. "The Cell Tracking Challenge: 10 years of objective benchmarking". Nature Methods (2023):
    Aceite para publicação
  14. Martin Maška; Vladimír Ulman; Pablo Delgado-Rodriguez; Estibaliz Gómez-de-Mariscal; Tereza Necasová; Fidel A. Guerrero Peña; Tsang Ing Ren; et al. "The Cell Tracking Challenge: 10 years of objective benchmarking". Nature Methods (2023): https://doi.org/10.1038/s41592-023-01879-y.
    10.1038/s41592-023-01879-y
  15. Spahn, Christoph; Gómez-de-Mariscal, Estibaliz; Laine, Romain F.; Pereira, Pedro M.; von Chamier, Lucas; Conduit, Mia; Pinho, Mariana G.; et al. "DeepBacs for multi-task bacterial image analysis using open-source deep learning approaches". Communications Biology 5 1 (2022): http://dx.doi.org/10.1038/s42003-022-03634-z.
    10.1038/s42003-022-03634-z
  16. Gómez-de-Mariscal, Estibaliz; Vanesa Guerrero; Alexandra Schneider; Hasini Jayatilaka; Jude M. Phillip; Denis Wirtz; Arrate Muñoz-Barrutia. Autor correspondente: Arrate Muñoz-Barrutia. "Use of the p-values as a size-dependent function to address practical differences when analyzing large datasets". Scientific Reports 11 1 (2021): http://dx.doi.org/10.1038/s41598-021-00199-5.
    10.1038/s41598-021-00199-5
  17. Estibaliz Gómez-de-Mariscal; Carlos García-López-de-Haro; Wei Ouyang; Laurène Donati; Emma Lundberg; Michael Unser; Arrate Muñoz-Barrutia; Daniel Sage. Autor correspondente: Daniel Sage. "DeepImageJ: A user-friendly environment to run deep learning models in ImageJ". Nature Methods (2021): https://doi.org/10.1038/s41592-021-01262-9.
    10.1038/s41592-021-01262-9
  18. Paula Martín-González; Gómez-de-Mariscal, Estibaliz; M Elena Martino ; Pedro M Gordaliza; Isabel Peligros; Jose Luis Carreras; Felipe A Calvo; et al. "Association of visual and quantitative heterogeneity of 18F-FDG PET images with treatment response in locally advanced rectal cancer: A feasibility study". PLOS ONE 15 11 (2020): e0242597-e0242597. http://dx.doi.org/10.1371/journal.pone.0242597.
    10.1371/journal.pone.0242597
  19. Gómez-de-Mariscal, Estibaliz; Martin Maška; Anna Kotrbová; Vendula Pospíchalová; Pavel Matula; Arrate Muñoz-Barrutia. Autor correspondente: Arrate Muñoz-Barrutia. "Deep-Learning-Based Segmentation of Small Extracellular Vesicles in Transmission Electron Microscopy Images". Scientific Reports (2019): http://dx.doi.org/10.1038/s41598-019-49431-3.
    10.1038/s41598-019-49431-3
Poster em conferência
  1. Del Rosario, Mario; Gómez-de-Mariscal, Estibaliz; Leonor Morgado; Pedro Matos Pereira; Ricardo Henriques; Guillaume Jacquemet. "Assessing the temporal footprint of phototoxicity". Trabalho apresentado em Imaging Cell Dynamics 2023, 2023.
  2. E. Gómez-de-Mariscal; Hasini Jayatilaka;; Õzgün Çiçek; Thomas Brox; Denis Wirtz; Arrate Munoz-Barrutia. Autor correspondente: Arrate Munoz-Barrutia. "Search for temporal cell segmentation robustness in phase-contrast microscopy videos". Trabalho apresentado em Medical Imaging with Deep Learning (MIDL), 2022.
  3. Gómez-de-Mariscal, Estibaliz; Alexandra Sneider; Hasini Jayatilaka; Jude M. Phillip; Denis Wirtz; Arrate Muñoz-Barrutia. "Use of the p-value as a size-dependent function: model and applications". Trabalho apresentado em Spanish & Portuguese Advanced Optical Microscopy Meeting (SPAOM), 2020.
  4. Gómez-de-Mariscal, Estibaliz; Martin Maška; Anna Kotrbová; Vendula Pospíchalová; Pavel Matula; Arrate Muñoz-Barrutia. "Universal extracellular vesicle segmentation method in TEM images". Trabalho apresentado em Spanish & Portuguese Advanced Optical Microscopy Meeting (SPAOM), 2019.
  5. Gómez-de-Mariscal, Estibaliz; Carmen Guzmán-García; Ion Andreu; Mikel Santiago; María J. Pajares; Claudio J. Conti; Carlos Ortiz de Solorzano; M. Reyes Elizalde; Arrate Muñoz-Barrutia. "Quantification of Collagen I degradation in lung cancer biopsies". Trabalho apresentado em 18th European Light Microscopy Initiative Meeting (ELMI), 2018.
  6. Gómez-de-Mariscal, Estibaliz; Martin Maška; Anna Kotrbová; Vendula Pospíchalová; Pavel Matula; Arrate Muñoz-Barrutia. "Fully automatic exosomes segmentation in transmission electron microscopy images". Trabalho apresentado em Spanish & Portuguese Advanced Optical Microscopy Meeting (SPAOM), 2018.
Pré-impressão
  1. Aitor González-Marfil; Estibaliz Gómez-de-Mariscal; Ignacio Arganda-Carreras. "DINOSim: Zero-Shot Object Detection and Semantic Segmentation on Microscopy Images". 2025. https://doi.org/10.1101/2025.03.09.642092.
    10.1101/2025.03.09.642092
  2. Mariana G. Ferreira; Bruno M. Saraiva; António D. Brito; Mariana G. Pinho; Ricardo Henriques; Estibaliz Gómez-de-Mariscal. "ReScale4DL: Balancing Pixel and Contextual Information for Enhanced Bioimage Segmentation". 2025. https://doi.org/10.1101/2025.04.09.647871.
    10.1101/2025.04.09.647871
  3. Luke Sorensen; Adam Humenick; Sabrina S.B. Poon; Myat Noe Han; Narges Sadat Mahdavian; Ryan Hamnett; Estibaliz Gómez-de-Mariscal; et al. "Gut Analysis Toolbox: Automating quantitative analysis of enteric neurons". 2024. https://doi.org/10.1101/2024.01.17.576140.
    10.1101/2024.01.17.576140
  4. Caterina Fuster-Barceló; Carlos García López de Haro; Estibaliz Gómez-de-Mariscal; Wei Ouyang; Jean-Christophe Olivo-Marin; Daniel Sage; Arrate Muñoz-Barrutia. "Bridging the Gap: Integrating Cutting-edge Techniques into Biological Imaging with deepImageJ". 2024. https://doi.org/10.1101/2024.01.12.575015.
    10.1101/2024.01.12.575015
  5. Mario Del Rosario; Estibaliz Gómez-de-Mariscal; Leonor Morgado; Raquel Portela; Guillaume Jacquemet; Pedro M. Pereira; Ricardo Henriques; Pedro Pereira. "PhotoFiTT: A Quantitative Framework for Assessing Phototoxicity in Live-Cell Microscopy Experiments". 2024. https://doi.org/10.1101/2024.07.16.603046.
    10.1101/2024.07.16.603046
  6. Iván Hidalgo-Cenalmor; Joanna W Pylvänäinen; Mariana G Ferreira; Craig T Russell; Ignacio Arganda-Carreras; Guillaume Jacquemet; Ricardo Henriques; Estibaliz Gómez-de-Mariscal. "DL4MicEverywhere: Deep learning for microscopy made flexible, shareable, and reproducible". 2023. https://doi.org/10.1101/2023.11.19.567606.
    10.1101/2023.11.19.567606
  7. Christoph Spahn; Stuart Middlemiss; Estibaliz Gómez-de-Mariscal; Ricardo Henriques; Helge B. Bode; Séamus Holden; Mike Heilemann. "Transertion and cell geometry organize theEscherichia colinucleoid during rapid growth". 2023. https://doi.org/10.1101/2023.10.16.562172.
    10.1101/2023.10.16.562172
  8. Estibaliz Gómez-de-Mariscal; Hanna Grobe; Joanna W. Pylvänäinen; Laura Xénard; Ricardo Henriques; Jean-Yves Tinevez; Guillaume Jacquemet. "CellTracksColab — A platform for compiling, analyzing, and exploring tracking data". 2023. https://doi.org/10.1101/2023.10.20.563252.
    10.1101/2023.10.20.563252
  9. Alon Saguy; Tav Nahimov; Maia Lehrman; Estibaliz Gómez-de-Mariscal; Iván Hidalgo-Cenalmor; Onit Alalouf; Ricardo Henriques; Yoav Shechtman. "This microtubule does not exist: Super-resolution microscopy image generation by a diffusion model". 2023. https://doi.org/10.1101/2023.07.06.548004.
    10.1101/2023.07.06.548004
  10. Praful R. Nair; Ludmila Danilova; Estibaliz Gómez-de-Mariscal; Dongjoo Kim; Rong Fan; Arrate Muñoz-Barrutia; Elana J. Fertig; Denis Wirtz. "MLL1 regulates cytokine-driven cell migration and metastasis". 2022. https://doi.org/10.1101/2022.10.18.512715.
    10.1101/2022.10.18.512715
  11. Ouyang, Wei; Beuttenmueller, Fynn; Gómez-de-Mariscal, Estibaliz; Pape, Constantin; Burke, Tom; Garcia-López-de-Haro, Carlos; Russell, Craig; et al. Autor correspondente: Jug, Florian. "BioImage Model Zoo: A Community-Driven Resource for Accessible Deep Learning in BioImage Analysis". 2022. http://dx.doi.org/10.1101/2022.06.07.495102.
    10.1101/2022.06.07.495102
  12. Gómez-de-Mariscal, Estibaliz; Hasini Jayatilaka; Õzgün Çiçek; Thomas Brox; Denis Wirtz; Arrate Muñoz-Barrutia. Autor correspondente: Arrate Muñoz-Barrutia. "Search for temporal cell segmentation robustness in phase-contrast microscopy videos". 2021. https://arxiv.org/abs/2112.08817.
Recurso online
  1. Daniel Sage; Gómez-de-Mariscal, Estibaliz; Laurène Donati; Michael Unser; Arrate Muñoz-Barrutia. Deep Learning for Bio-Image Analysis in one Click. 2021. https://protocolsmethods.springernature.com/posts/deep-learning-for-bio-image-analysis-in-one-click.
  2. Gómez-de-Mariscal, Estibaliz; Cristina de-la-Torre-Gutiérrez; Arrate Muñoz-Barrutia; Daniel Sage. DeepImageJ: Deep learning in bioimage analysis for dummies. 2021. https://focalplane.biologists.com/2021/12/02/deepimagej-deep-learning-in-bioimage-analysis-for-dummies/.
Resumo em conferência
  1. Gómez-de-Mariscal, Estibaliz. "AI4Life: Empowering BioImaging through the BioEngine". Trabalho apresentado em I2K From Images to Knowledge, 2024.
    Publicado
  2. Gómez-de-Mariscal, Estibaliz; Carlos García-López-de-Haro; Cristina de-la-Torre-Gutiérrez; Romain F. Laine; Guillaume Jacquemet; Henriques, Ricardo; Daniel Sage; Arrate Muñoz-Barrutia. "Reproducible user-friendly deep learning workflows for microscopy image analysis with deepImageJ". Trabalho apresentado em Focus on Microscopy, 2022.
  3. Gómez-de-Mariscal, Estibaliz; Carlos García-López-de-Haro; Arrate Muñoz-Barrutia; Daniel Sage. "Deep Learning- based bioimage processing in one click with deepImageJ". Trabalho apresentado em Bioimage informatics, Institut Pasteur, 2021.
  4. Gómez-de-Mariscal, Estibaliz; Carlos García-López-de-Haro; Arrate Muñoz-Barrutia; Daniel Sage. "Deep Learning prediction for microscopy imaging with ImageJ". Trabalho apresentado em Crick BioImage Analysis Symposium (CBIA), 2021.
  5. Gómez-de-Mariscal, Estibaliz; Carlos García-López-de-Haro; Arrate Muñoz-Barrutia; Daniel Sage. "DeepImageJ: Bridging Deep Learning to ImageJ". Trabalho apresentado em European Light Microscopy Initiative, (ELMI), 2021.
  6. Gómez-de-Mariscal, Estibaliz; Hasini Jayatilaka; H.J. Kim; P. Tyle; M. Matsuda; Denis Wirtz; Arrate Muñoz-Barrutia. "Automatic segmentation of cell protrusions in low magnification phase contrast microscopy videos". Trabalho apresentado em IEEE International Symposium on Biomedical Imaging (ISBI), Washington, 2018.
  7. Paula Martín-González; M Elena Martino ; Pedro M. Gordaliza; Gómez-de-Mariscal, Estibaliz; Jose Luis Carreras; F. A. Calvo; Javier Pascau; Manuel Desco; Arrate Muñoz-Barrutia. "Heterogeneity Analysis in 18F-FDG FET/CT: Does it Have Clinical Significance for Evaluating the Response to Chemoradiotherapy in Locally Advanced Rectal Cancer?". Trabalho apresentado em Workshop of the European Association for Cancer Research, 2017.
Tese / Dissertação
  1. "Insights to the characterization of cell motility and intercellular communication through a bioimage analysis perspective". Doutoramento, Universidad Carlos III de Madrid - Campus de Leganés, 2021. http://hdl.handle.net/10016/33566.
Website
  1. DeepImageJ website. 2019. https://deepimagej.github.io/deepimagej/.

Outros

Conjunto de dados
  1. HT1080WT cells embedded in 3D collagen type I matrices.
    10.5281/zenodo.5979761
Outra produção
  1. DeepBacs: Bacterial image analysis using open-source deep learning approaches. 2021. Christoph Spahn; Romain F. Laine; Pedro Matos Pereira; Estibaliz Gómez-de-Mariscal; Lucas von Chamier; Mia Conduit; Mariana Gomes de Pinho; et al. https://doi.org/10.1101/2021.11.03.467152.
    10.1101/2021.11.03.467152
  2. Use of the p-value as a size-dependent function to address practical differences when analyzing large datasets. 2019. Estibaliz Gómez-de-Mariscal; Vanesa Guerrero; Alexandra Sneider; Hasini Jayatilaka; Jude M. Phillip; Denis Wirtz; Arrate Muñoz-Barrutia. https://doi.org/10.1101/2019.12.17.878405.
    10.1101/2019.12.17.878405
  3. DeepImageJ: A user-friendly environment to run deep learning models in ImageJ. 2019. Estibaliz Gómez-de-Mariscal; Carlos García-López-de-Haro; Wei Ouyang; Laurène Donati; Emma Lundberg; Michael Unser; Arrate Muñoz-Barrutia; Daniel Sage. https://doi.org/10.1101/799270.
    10.1101/799270
Atividades

Apresentação oral de trabalho

Título da apresentação Nome do evento
Anfitrião (Local do evento)
2026 Harnessing AI towards the limits of live microscopy imaging Single Molecule Localization Microscopy Symposium 2025
(Bonn, Alemanha)
2025/10 Harnessing AI towards the limits of live microscopy imaging Spanish & Portuguese Advanced Optical Microscopy Meeting (SPAOM)
(Braga, Portugal)
2025/05/30 Harnessing AI towards the limits of live microscopy imaging EMBO Young Investigator Annual Meeting
(Prague, República Checa)
2025 Harnessing AI towards the limits of live microscopy imaging European Light Microscopy Initiative, (ELMI)
EMBL (Heidelberg, Alemanha)
2023/10/17 Harnessing AI towards the limits of live microscopy imaging Imaging Life: the future
MRI Montpellier (Montpellier, França)
2022/11 Deep learning-enabled cellular imaging: making it happen for you Crick BioImage Analysis Symposium (CBIA)
(Reino Unido)
2022/07/11 FAIRy Deep Learning for Microscopy Open Neurscience, FENS Forum
Institute Pasteur (França)
2022/02/16 Open-source ecosystems for user-friendly deep learning workflows in bioimage analysis Focal plane features Machine Learning
2020 Deep learning en imagen biomédica (in Spanish) Master in Data Science Seminar
Universidad Rey Juan Carlos Madrid (Madrid, Espanha)

Orientação

Título / Tema
Papel desempenhado 		Curso (Tipo)
Instituição / Organização
2023/04/01 - Atual Deep Self-Supervised Learning methods for biomedical image analysis.
Coorientador
 Computational Engineering (Doutoramento)
Universidad del País Vasco - Campus Gipuzkoa, Espanha
2024/11 - 2025/11 AI-empowered personalized cancer treatment screening
Orientador de M. da Silva Pinto de Tavares Gamboa
Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal
2022/09/01 - 2023/01/30 Quantitative assessment of phototoxicity during embryo development
Orientador
 Biomedical Engineering (Licenciatura/Bacharelato)
Universidade de Lisboa Instituto Superior Técnico, Portugal

Universidad Carlos III de Madrid - Campus de Leganés, Espanha
2022/01/01 - 2022/12/30 Deep learning single image super-resolution in microscopy data: distortion error vs perceptual quality
Coorientador
 Computer Engineering and Intelligent System (Mestrado)
Universidad del País Vasco, Espanha
2019/09/01 - 2020/06/30 Automatic segmentation of cells in phase-contrast microscopy images
Orientador
2017 - 2017 Microstructure - mechanical property relation of the extracellular matrix in lung cancer
Coorientador

Organização de evento

Nome do evento
Tipo de evento (Tipo de participação) 		Instituição / Organização
2024/08 - 2024/08 AI4Life pre-symposium workshop&hackathon: Trends in AI for super-resolution microscopy (2024/08 - 2024/08)
Oficina (workshop) (Presidente da Comissão Organizadora)
 Gulbenkian Institute for Molecular Medicine, Portugal

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2021/08 - 2021/08 Open-source ecosystems for user-friendly deep learning workflows in bioimage analysis
Seminário
 BioImage Informatics Finland network
University of Turku, Finlândia
2021 - 2021 Microscopy data analysis: Machine learning and the BioImage Archive
Oficina (workshop)
 EBI – EMBL course
European Bioinformatics Institute, Reino Unido
2020 - 2020 WS6: Practical Applications of Deep learning for Bioimage Analysis
Oficina (workshop)
 Spanish Portuguese Meeting for Advanced Optical Microscopy (SPAOM)
2019 - 2019 New insights on 3D cell migration through the study of cellular protrusions
Seminário
 Seminars on Mechanobiology
Universidad Carlos III de Madrid, Espanha

Consejo Superior de Investigaciones Científicas Secretaría General Adjunta de Informática, Espanha
2018/10 - 2018/10 WS5: Machine Learning - Deep Learning. Applications to Bioimage Analysis
Oficina (workshop)
 Spanish Portuguese Meeting for Advanced Optical Microscopy (SPAOM)

Júri de grau académico

Tema
Tipo de participação 		Nome do candidato (Tipo de grau)
Instituição / Organização
2023/10/06 A Colour Wheel to Rule them All: Analysing Colour & Geometry in Medical Microscopy.
Arguente
 Laura Nicolás Sáenz (Doutoramento)
Universidad Carlos III de Madrid, Espanha
2022/10/28 Democratizing Deep Learning methods by means of AutoML tools
Arguente
 Manuel García Domínguez (Doutoramento)
Universidad de la Rioja, Espanha
2019/02/28 Segmentación y extracción del pulmón dañado por infección causada por Micobacteria Tuberculosis en imágenes de TAC (Segmentation and removal of lung damaged by Mycobacterium tuberculosis infection on CT images) Carmen Guzmán García (Mestrado)
Universidad Rey Juan Carlos, Espanha

Curso / Disciplina lecionado

Disciplina Curso (Tipo) Instituição / Organização
2020 - Atual Introduction to Deep Learning ZIDAS - SwitZerland's Image and Data Analysis School (Summer School) École Polytechnique Fédérale de Lausanne, Suiça
2026/02/23 - 2026/02/24 Computer Vision for Life Sciences Degree in Computational and Intelligent Systems Engineering (Master) Universidad del País Vasco - Campus de Gipuzkoa, Espanha
2022/09/08 - 2022/09/18 DL community tools for bioimage analysis Marine Biology Laboratory, Estados Unidos
2022/06/10 - 2022/06/16 BioImage analysis: from visual to quantitative biology and the other way around Centre de recherche CERVO, Canadá
2021/02 - 2021/06 Medical image processing (Bachelor)
2020/09/01 - 2021/01/31 Biomedical image processing (Master Universitario) Universidad Carlos III de Madrid, Espanha
2021 - 2021 User-friendly face of deep learning for bioimage analysis ZIDAS - SwitZerland's Image and Data Analysis School (Summer School) École Polytechnique Fédérale de Lausanne, Suiça
2020/02 - 2020/06 Medical image processing (Bachelor) Universidad Carlos III de Madrid, Espanha
2020/02 - 2020/06 Biomedical microdevices (Bachelor) Universidad Carlos III de Madrid, Espanha
2019/09/01 - 2020/01/30 Biomedical image processing (Master Universitario) Universidad Carlos III de Madrid, Espanha
2019/02 - 2019/06 Medical image processing (Bachelor) Universidad Carlos III de Madrid, Espanha
2019/02 - 2019/06 Biomedical microdevices (Bachelor) Universidad Carlos III de Madrid, Espanha

Entrevista (jornal / revista)

Descrição da atividade Jornal / Forum
2024/02/27 Interview with Estibaliz Gómez de Mariscal for Focal Plane Focal Plane

Expedição científica

Descrição da atividade Instituição / Organização
2024/03 - 2024/04 Visiting researcher at Turku Bioscience Centre (Jacquemet Lab) Turku Bioscience Centre, Finlândia

Membro de comissão

Descrição da atividade
Tipo de participação 		Instituição / Organização
2024 - Atual PhD thesis committee
Membro
 Universidad del País Vasco - Campus de Gipuzkoa, Espanha

Tutoria

Tópico Nome do aluno
2024/01/07 - 2024/10/31 Automatic quantification of apoptosis in zebra fish human avatars Sebastião Taveira
2018/06/01 - 2018/08/31 On the creation of large microscopy image datasets for robust training of deep-learning methods Tatiana Pereira
Distinções

Prémio

2022 President Innovation Award
2021 Premio extraordinario de doctorado 2020-2021
Universidad Carlos III de Madrid, Espanha
2018 PhD international mobility scholarship
Universidad Carlos III de Madrid, Espanha
2017 Best Poster Award, Advanced Methods in Biomedical Image Analysis Summer School
Masarykova univerzita, República Checa

Outra distinção

2025 Scientific Ambassador
EuroBioimaging, Finlândia
2017 Individual 4-year scholarship for PhD tuition fees and salary
Universidad Carlos III de Madrid, Espanha
2015 Excellence Scholarship - Master's degree funding
Universidad Complutense de Madrid, Espanha
2015 Master degree scholarship from the Faculty of Mathematics
Universidad Complutense de Madrid Facultad de Ciencias Matemáticas, Espanha